fix(management): localize marketplace registry per instance

src/management/instance-manager.ts

@@ -26,11 +26,13 @@ class InstanceManager {
   private readonly instancesDir: string;
   private readonly sharedManager: SharedManager;
   private readonly contextSyncLock: ProfileContextSyncLock;
+  private readonly pluginLayoutLock: ProfileContextSyncLock;
 
   constructor() {
     this.instancesDir = path.join(getCcsDir(), 'instances');
     this.sharedManager = new SharedManager();
     this.contextSyncLock = new ProfileContextSyncLock(this.instancesDir);
+    this.pluginLayoutLock = new ProfileContextSyncLock(this.instancesDir);
   }
 
   /**
@@ -56,9 +58,15 @@ class InstanceManager {
       // Apply context policy (isolated by default, optional shared group).
       await this.sharedManager.syncProjectContext(instancePath, contextPolicy);
       await this.sharedManager.syncAdvancedContinuityArtifacts(instancePath, contextPolicy);
+
+      if (!options.bare) {
+        await this.pluginLayoutLock.withNamedLock('__plugin-layout__', async () => {
+          this.sharedManager.linkSharedDirectories(instancePath);
+        });
+      }
     });
 
-    this.sharedManager.normalizeSharedPluginMetadataPaths(instancePath);
+    this.sharedManager.normalizeSharedPluginMetadataPaths(options.bare ? undefined : instancePath);
 
     // Sync MCP servers from global ~/.claude.json (unless bare)
     if (!options.bare) {
@@ -82,7 +90,7 @@ class InstanceManager {
   private initializeInstance(
     profileName: string,
     instancePath: string,
-    options: InstanceOptions = {}
+    _options: InstanceOptions = {}
   ): void {
     try {
       // Create base directory
@@ -106,10 +114,7 @@ class InstanceManager {
         }
       });
 
-      // Bare profiles skip shared symlinks (commands, skills, agents, settings.json)
+      // Shared links are created during ensureInstance() under the plugin layout lock.
-      if (!options.bare) {
-        this.sharedManager.linkSharedDirectories(instancePath);
-      }
     } catch (error) {
       throw new Error(
         `Failed to initialize instance for ${profileName}: ${(error as Error).message}`

src/management/profile-context-sync-lock.ts

@@ -106,8 +106,8 @@ class ProfileContextSyncLock {
     return this.tryRemoveLockIfUnchanged(lockPath, snapshot.raw);
   }
 
-  async withLock<T>(profileName: string, callback: () => Promise<T>): Promise<T> {
+  async withNamedLock<T>(lockName: string, callback: () => Promise<T>): Promise<T> {
-    const lockPath = this.getLockPath(profileName);
+    const lockPath = this.getLockPath(lockName);
     const retryDelayMs = 50;
     const staleLockMs = 30000;
     const timeoutMs = staleLockMs + 5000;
@@ -159,7 +159,7 @@ class ProfileContextSyncLock {
         }
 
         if (Date.now() - start > timeoutMs) {
-          throw new Error(`Timed out waiting for profile context lock: ${profileName}`);
+          throw new Error(`Timed out waiting for profile context lock: ${lockName}`);
         }
 
         await new Promise((resolve) => setTimeout(resolve, retryDelayMs));
@@ -172,6 +172,10 @@ class ProfileContextSyncLock {
       this.tryRemoveLockIfUnchanged(lockPath, ownerPayloadRaw);
     }
   }
+
+  async withLock<T>(profileName: string, callback: () => Promise<T>): Promise<T> {
+    return this.withNamedLock(profileName, callback);
+  }
 }
 
 export default ProfileContextSyncLock;

src/management/shared-manager.ts

@@ -18,23 +18,64 @@ interface SharedItem {
   type: 'directory' | 'file';
 }
 
-export function normalizePluginMetadataPathString(input: string): string {
+const DEFAULT_INSTALLED_PLUGIN_REGISTRY = JSON.stringify(
-  return input.replace(
+  {
-    /([\\/])\.ccs\1instances\1[^\\/]+\1/g,
+    version: 2,
-    (_match, separator: string) => `${separator}.claude${separator}`
+    plugins: {},
+  },
+  null,
+  2
+);
+
+function getPluginPathModule(
+  targetConfigDir: string,
+  input: string
+): typeof path.posix | typeof path.win32 {
+  return targetConfigDir.includes('\\') || input.includes('\\') ? path.win32 : path.posix;
+}
+
+function normalizeTargetConfigDir(targetConfigDir: string, input: string): string {
+  const pathModule = getPluginPathModule(targetConfigDir, input);
+  return pathModule.normalize(
+    pathModule === path.win32
+      ? targetConfigDir.replace(/\//g, '\\')
+      : targetConfigDir.replace(/\\/g, '/')
   );
 }
 
-function normalizePluginMetadataValue(value: unknown): { normalized: unknown; changed: boolean } {
+export function normalizePluginMetadataPathString(
+  input: string,
+  targetConfigDir = path.join(os.homedir(), '.claude')
+): string {
+  const match = input.match(
+    /^(.*?)([\\/])(?:\.claude|\.ccs\2shared|\.ccs\2instances\2[^\\/]+)\2plugins(?:(\2.*))?$/
+  );
+
+  if (!match) {
+    return input;
+  }
+
+  const pathModule = getPluginPathModule(targetConfigDir, input);
+  const normalizedTargetConfigDir = normalizeTargetConfigDir(targetConfigDir, input);
+  const suffix = match[3] ?? '';
+  const suffixSegments = suffix.split(/[\\/]+/).filter(Boolean);
+
+  return pathModule.join(normalizedTargetConfigDir, 'plugins', ...suffixSegments);
+}
+
+function normalizePluginMetadataValue(
+  value: unknown,
+  targetConfigDir: string
+): { normalized: unknown; changed: boolean } {
   if (typeof value === 'string') {
-    const normalized = normalizePluginMetadataPathString(value);
+    const normalized = normalizePluginMetadataPathString(value, targetConfigDir);
     return { normalized, changed: normalized !== value };
   }
 
   if (Array.isArray(value)) {
     let changed = false;
     const normalized = value.map((item) => {
-      const result = normalizePluginMetadataValue(item);
+      const result = normalizePluginMetadataValue(item, targetConfigDir);
       changed = changed || result.changed;
       return result.normalized;
     });
@@ -45,7 +86,7 @@ function normalizePluginMetadataValue(value: unknown): { normalized: unknown; ch
     let changed = false;
     const normalized = Object.fromEntries(
       Object.entries(value as Record<string, unknown>).map(([key, item]) => {
-        const result = normalizePluginMetadataValue(item);
+        const result = normalizePluginMetadataValue(item, targetConfigDir);
         changed = changed || result.changed;
         return [key, result.normalized];
       })
@@ -56,9 +97,12 @@ function normalizePluginMetadataValue(value: unknown): { normalized: unknown; ch
   return { normalized: value, changed: false };
 }
 
-export function normalizePluginMetadataContent(original: string): string {
+export function normalizePluginMetadataContent(
+  original: string,
+  targetConfigDir = path.join(os.homedir(), '.claude')
+): string {
   const parsed = JSON.parse(original) as unknown;
-  const result = normalizePluginMetadataValue(parsed);
+  const result = normalizePluginMetadataValue(parsed, targetConfigDir);
   return result.changed ? JSON.stringify(result.normalized, null, 2) : original;
 }
 
@@ -71,6 +115,12 @@ class SharedManager {
   private readonly claudeDir: string;
   private readonly instancesDir: string;
   private readonly sharedItems: SharedItem[];
+  private readonly sharedPluginEntries: readonly SharedItem[] = [
+    { name: 'cache', type: 'directory' },
+    { name: 'marketplaces', type: 'directory' },
+    { name: 'installed_plugins.json', type: 'file' },
+  ];
+  private readonly instanceLocalPluginMetadataFiles = new Set(['known_marketplaces.json']);
   private readonly advancedContinuityItems: readonly string[] = [
     'session-env',
     'file-history',
@@ -148,6 +198,8 @@ class SharedManager {
       fs.mkdirSync(this.sharedDir, { recursive: true, mode: 0o700 });
     }
 
+    this.ensureSharedPluginLayoutDefaults();
+
     // Create symlinks ~/.ccs/shared/* → ~/.claude/*
     for (const item of this.sharedItems) {
       const claudePath = path.join(this.claudeDir, item.name);
@@ -221,17 +273,15 @@ class SharedManager {
     this.ensureSharedDirectories();
 
     for (const item of this.sharedItems) {
+      if (item.name === 'plugins') {
+        this.linkInstancePlugins(instancePath);
+        continue;
+      }
+
       const linkPath = path.join(instancePath, item.name);
       const targetPath = path.join(this.sharedDir, item.name);
 
-      // Remove existing file/directory/link
+      this.removeExistingPath(linkPath, item.type);
-      if (fs.existsSync(linkPath)) {
-        if (item.type === 'directory') {
-          fs.rmSync(linkPath, { recursive: true, force: true });
-        } else {
-          fs.unlinkSync(linkPath);
-        }
-      }
 
       // Create symlink
       try {
@@ -257,6 +307,126 @@ class SharedManager {
     this.normalizeSharedPluginMetadataPaths(instancePath);
   }
 
+  private ensureSharedPluginLayoutDefaults(): void {
+    const pluginsDir = path.join(this.claudeDir, 'plugins');
+    fs.mkdirSync(pluginsDir, { recursive: true, mode: 0o700 });
+
+    for (const entry of this.sharedPluginEntries) {
+      const entryPath = path.join(pluginsDir, entry.name);
+      if (fs.existsSync(entryPath)) {
+        continue;
+      }
+
+      if (entry.type === 'directory') {
+        fs.mkdirSync(entryPath, { recursive: true, mode: 0o700 });
+        continue;
+      }
+
+      fs.writeFileSync(entryPath, DEFAULT_INSTALLED_PLUGIN_REGISTRY, 'utf8');
+    }
+
+    const marketplaceRegistryPath = path.join(pluginsDir, 'known_marketplaces.json');
+    if (!fs.existsSync(marketplaceRegistryPath)) {
+      fs.writeFileSync(marketplaceRegistryPath, JSON.stringify({}, null, 2), 'utf8');
+    }
+  }
+
+  private linkInstancePlugins(instancePath: string): void {
+    const linkPath = path.join(instancePath, 'plugins');
+    const targetPath = path.join(this.sharedDir, 'plugins');
+    let linkStats: fs.Stats | null = null;
+
+    try {
+      linkStats = fs.lstatSync(linkPath);
+    } catch (err) {
+      if ((err as NodeJS.ErrnoException).code !== 'ENOENT') {
+        throw err;
+      }
+    }
+
+    if (linkStats?.isSymbolicLink() || (linkStats && !linkStats.isDirectory())) {
+      this.removeExistingPath(linkPath, linkStats.isDirectory() ? 'directory' : 'file');
+    }
+
+    if (!linkStats || !linkStats.isDirectory()) {
+      fs.mkdirSync(linkPath, { recursive: true, mode: 0o700 });
+    }
+
+    for (const item of this.getSharedPluginLinkItems()) {
+      const targetEntryPath = path.join(targetPath, item.name);
+      const linkEntryPath = path.join(linkPath, item.name);
+
+      this.removeExistingPath(linkEntryPath, item.type);
+
+      try {
+        const symlinkType = item.type === 'directory' ? 'dir' : 'file';
+        fs.symlinkSync(targetEntryPath, linkEntryPath, symlinkType);
+      } catch (_err) {
+        if (process.platform === 'win32') {
+          if (item.type === 'directory') {
+            this.copyDirectoryFallback(targetEntryPath, linkEntryPath);
+          } else {
+            fs.copyFileSync(targetEntryPath, linkEntryPath);
+          }
+          console.log(
+            warn(`Symlink failed for plugins/${item.name}, copied instead (enable Developer Mode)`)
+          );
+        } else {
+          throw _err;
+        }
+      }
+    }
+  }
+
+  private getSharedPluginLinkItems(): SharedItem[] {
+    const sharedPluginsPath = path.join(this.sharedDir, 'plugins');
+    const items = new Map<string, SharedItem>(
+      this.sharedPluginEntries.map((entry) => [entry.name, { ...entry }])
+    );
+
+    for (const entry of fs.readdirSync(sharedPluginsPath, { withFileTypes: true })) {
+      if (items.has(entry.name) || this.instanceLocalPluginMetadataFiles.has(entry.name)) {
+        continue;
+      }
+
+      const entryPath = path.join(sharedPluginsPath, entry.name);
+      const stats = fs.statSync(entryPath);
+      items.set(entry.name, {
+        name: entry.name,
+        type: stats.isDirectory() ? 'directory' : 'file',
+      });
+    }
+
+    return [...items.values()];
+  }
+
+  private removeExistingPath(targetPath: string, typeHint: SharedItem['type']): void {
+    try {
+      const stats = fs.lstatSync(targetPath);
+      if (stats.isDirectory() && !stats.isSymbolicLink()) {
+        fs.rmSync(targetPath, { recursive: true, force: true });
+        return;
+      }
+
+      if (stats.isSymbolicLink() || typeHint === 'file') {
+        fs.unlinkSync(targetPath);
+        return;
+      }
+
+      fs.rmSync(targetPath, { recursive: true, force: true });
+    } catch (err) {
+      if ((err as NodeJS.ErrnoException).code === 'ENOENT') {
+        return;
+      }
+
+      if (typeHint === 'directory') {
+        fs.rmSync(targetPath, { recursive: true, force: true });
+      } else {
+        fs.rmSync(targetPath, { force: true });
+      }
+    }
+  }
+
   /**
    * Sync project workspace context based on account policy.
    *
@@ -583,7 +753,7 @@ class SharedManager {
   }
 
   /**
-   * Normalize shared plugin metadata files to canonical ~/.claude/ paths.
+   * Normalize plugin metadata and reconcile marketplace metadata for the active config dir.
    */
   normalizeSharedPluginMetadataPaths(configDir?: string): void {
     this.normalizePluginRegistryPaths(configDir);
@@ -607,19 +777,31 @@ class SharedManager {
   }
 
   /**
-   * Normalize marketplace registry paths to use canonical ~/.claude/ paths
+   * Reconcile marketplace registry content into the active config dir while
-   * instead of instance-specific ~/.ccs/instances/<name>/ paths.
+   * keeping the global ~/.claude copy up to date for non-instance flows.
-   *
-   * This ensures known_marketplaces.json is consistent regardless of
-   * which CCS instance added the marketplace.
    */
   normalizeMarketplaceRegistryPaths(configDir?: string): void {
-    this.normalizePluginMetadataFiles(
+    const successMessage = 'Synchronized marketplace registry paths';
-      'known_marketplaces.json',
+    const warningLabel = 'marketplace registry';
-      configDir,
+
-      'Normalized marketplace registry paths',
+    try {
-      'marketplace registry'
+      const sourcePaths = this.getMarketplaceRegistrySourcePaths(configDir);
-    );
+      this.writePluginMetadataFile(
+        path.join(this.claudeDir, 'plugins', 'known_marketplaces.json'),
+        this.buildMarketplaceRegistryContent(sourcePaths, this.claudeDir),
+        successMessage
+      );
+
+      if (configDir && path.resolve(configDir) !== path.resolve(this.claudeDir)) {
+        this.writePluginMetadataFile(
+          path.join(configDir, 'plugins', 'known_marketplaces.json'),
+          this.buildMarketplaceRegistryContent(sourcePaths, configDir),
+          successMessage
+        );
+      }
+    } catch (err) {
+      console.log(warn(`Could not synchronize ${warningLabel}: ${(err as Error).message}`));
+    }
   }
 
   private normalizePluginMetadataFiles(
@@ -676,6 +858,107 @@ class SharedManager {
     }
   }
 
+  private getMarketplaceRegistrySourcePaths(configDir?: string): string[] {
+    const sourcePaths = new Set<string>([
+      path.join(this.claudeDir, 'plugins', 'known_marketplaces.json'),
+    ]);
+
+    if (fs.existsSync(this.instancesDir)) {
+      for (const entry of fs.readdirSync(this.instancesDir, { withFileTypes: true })) {
+        if (!entry.isDirectory()) {
+          continue;
+        }
+
+        sourcePaths.add(
+          path.join(this.instancesDir, entry.name, 'plugins', 'known_marketplaces.json')
+        );
+      }
+    }
+
+    if (configDir && path.resolve(configDir) !== path.resolve(this.claudeDir)) {
+      sourcePaths.add(path.join(configDir, 'plugins', 'known_marketplaces.json'));
+    }
+
+    return [...sourcePaths];
+  }
+
+  private buildMarketplaceRegistryContent(sourcePaths: string[], targetConfigDir: string): string {
+    const merged: Record<string, unknown> = {};
+
+    for (const registryPath of sourcePaths) {
+      if (!fs.existsSync(registryPath)) {
+        continue;
+      }
+
+      try {
+        const parsed = JSON.parse(fs.readFileSync(registryPath, 'utf8')) as unknown;
+        if (!parsed || typeof parsed !== 'object' || Array.isArray(parsed)) {
+          continue;
+        }
+
+        for (const [name, value] of Object.entries(parsed as Record<string, unknown>)) {
+          merged[name] = normalizePluginMetadataValue(value, targetConfigDir).normalized;
+        }
+      } catch (_err) {
+        // Best-effort merge: malformed sources should not block self-heal.
+      }
+    }
+
+    for (const [name, value] of Object.entries(this.discoverMarketplaceEntries(targetConfigDir))) {
+      const existing = merged[name];
+      if (existing && typeof existing === 'object' && !Array.isArray(existing)) {
+        merged[name] = {
+          ...(existing as Record<string, unknown>),
+          installLocation: value.installLocation,
+        };
+        continue;
+      }
+
+      merged[name] = value;
+    }
+
+    return JSON.stringify(merged, null, 2);
+  }
+
+  private discoverMarketplaceEntries(
+    targetConfigDir: string
+  ): Record<string, { installLocation: string }> {
+    const marketplacesDir = path.join(targetConfigDir, 'plugins', 'marketplaces');
+    if (!fs.existsSync(marketplacesDir)) {
+      return {};
+    }
+
+    const discovered: Record<string, { installLocation: string }> = {};
+
+    for (const entry of fs.readdirSync(marketplacesDir, { withFileTypes: true })) {
+      if (!entry.isDirectory()) {
+        continue;
+      }
+
+      discovered[entry.name] = {
+        installLocation: path.join(targetConfigDir, 'plugins', 'marketplaces', entry.name),
+      };
+    }
+
+    return discovered;
+  }
+
+  private writePluginMetadataFile(
+    registryPath: string,
+    content: string,
+    successMessage: string
+  ): void {
+    fs.mkdirSync(path.dirname(registryPath), { recursive: true, mode: 0o700 });
+    const current = fs.existsSync(registryPath) ? fs.readFileSync(registryPath, 'utf8') : null;
+
+    if (current === content) {
+      return;
+    }
+
+    fs.writeFileSync(registryPath, content, 'utf8');
+    console.log(ok(successMessage));
+  }
+
   /**
    * Migrate from v3.1.1 (copied data in ~/.ccs/shared/) to v3.2.0 (symlinks to ~/.claude/)
    * Runs once on upgrade

tests/unit/instance-manager-mcp-sync.test.ts

@@ -11,6 +11,12 @@ describe('InstanceManager MCP sync', () => {
   let originalCcsHome: string | undefined;
   let originalCcsDir: string | undefined;
 
+  const claudeDir = () => path.join(tempRoot, '.claude');
+  const marketplacePath = (configDir: string, name = 'claude-code-plugins') =>
+    path.join(configDir, 'plugins', 'marketplaces', name);
+  const readJson = (filePath: string) =>
+    JSON.parse(fs.readFileSync(filePath, 'utf8')) as Record<string, unknown>;
+
   function writeMarketplaceRegistry(registryPath: string, installLocation: string): void {
     fs.mkdirSync(path.dirname(registryPath), { recursive: true });
     fs.writeFileSync(
@@ -28,6 +34,11 @@ describe('InstanceManager MCP sync', () => {
     );
   }
 
+  function expectMarketplaceLocation(registryPath: string, expectedLocation: string): void {
+    const parsed = readJson(registryPath) as Record<string, { installLocation?: string }>;
+    expect(parsed['claude-code-plugins']?.installLocation).toBe(expectedLocation);
+  }
+
   beforeEach(() => {
     tempRoot = fs.mkdtempSync(path.join(os.tmpdir(), 'ccs-instance-mcp-test-'));
     originalHome = process.env.HOME;
@@ -95,9 +106,10 @@ describe('InstanceManager MCP sync', () => {
     const synced = manager.syncMcpServers(instancePath);
     expect(synced).toBe(true);
 
-    const instanceContent = JSON.parse(
+    const instanceContent = readJson(path.join(instancePath, '.claude.json')) as {
-      fs.readFileSync(path.join(instancePath, '.claude.json'), 'utf8')
+      otherKey: string;
-    );
+      mcpServers: Record<string, { command: string }>;
+    };
     expect(instanceContent.otherKey).toBe('keep-me');
     expect(instanceContent.mcpServers).toEqual({
       globalOnly: { command: 'global-cmd' },
@@ -134,9 +146,9 @@ describe('InstanceManager MCP sync', () => {
 
     const manager = new InstanceManager();
     const instancePath = manager.getInstancePath('sandbox');
-    const sharedRegistryPath = path.join(tempRoot, '.claude', 'plugins', 'known_marketplaces.json');
+    const globalRegistryPath = path.join(claudeDir(), 'plugins', 'known_marketplaces.json');
     writeMarketplaceRegistry(
-      sharedRegistryPath,
+      globalRegistryPath,
       path.join(
         tempRoot,
         '.ccs',
@@ -150,20 +162,16 @@ describe('InstanceManager MCP sync', () => {
 
     await manager.ensureInstance('sandbox', { mode: 'isolated' }, { bare: true });
 
-    const normalized = JSON.parse(fs.readFileSync(sharedRegistryPath, 'utf8'));
-
     expect(linkSharedSpy).not.toHaveBeenCalled();
     expect(fs.existsSync(instancePath)).toBe(true);
-    expect(normalized['claude-code-plugins'].installLocation).toBe(
+    expectMarketplaceLocation(globalRegistryPath, marketplacePath(claudeDir()));
-      path.join(tempRoot, '.claude', 'plugins', 'marketplaces', 'claude-code-plugins')
-    );
     expect(fs.existsSync(path.join(instancePath, 'plugins', 'known_marketplaces.json'))).toBe(
       false
     );
     expect(syncMcpSpy).not.toHaveBeenCalled();
   });
 
-  it('normalizes shared plugin metadata for existing non-bare instances', async () => {
+  it('rewrites existing non-bare instance marketplace metadata to the instance-local plugin dir', async () => {
     spyOn(SharedManager.prototype, 'syncProjectContext').mockResolvedValue(undefined);
     spyOn(SharedManager.prototype, 'syncAdvancedContinuityArtifacts').mockResolvedValue(undefined);
     const syncMcpSpy = spyOn(InstanceManager.prototype, 'syncMcpServers').mockImplementation(
@@ -174,38 +182,28 @@ describe('InstanceManager MCP sync', () => {
     const instancePath = manager.getInstancePath('work');
     writeMarketplaceRegistry(
       path.join(instancePath, 'plugins', 'known_marketplaces.json'),
-      path.join(
+      path.join(tempRoot, '.claude', 'plugins', 'marketplaces', 'claude-code-plugins')
-        tempRoot,
-        '.ccs',
-        'instances',
-        'work',
-        'plugins',
-        'marketplaces',
-        'claude-code-plugins'
-      )
     );
 
     await manager.ensureInstance('work', { mode: 'isolated' });
 
-    const normalized = JSON.parse(
+    expectMarketplaceLocation(
-      fs.readFileSync(path.join(instancePath, 'plugins', 'known_marketplaces.json'), 'utf8')
+      path.join(instancePath, 'plugins', 'known_marketplaces.json'),
-    );
+      marketplacePath(instancePath)
-    expect(normalized['claude-code-plugins'].installLocation).toBe(
-      path.join(tempRoot, '.claude', 'plugins', 'marketplaces', 'claude-code-plugins')
     );
     expect(syncMcpSpy).toHaveBeenCalledWith(instancePath);
   });
 
-  it('normalizes shared plugin metadata during new non-bare instance creation', async () => {
+  it('writes new non-bare instance marketplace metadata without clobbering the global copy', async () => {
     spyOn(SharedManager.prototype, 'syncProjectContext').mockResolvedValue(undefined);
     spyOn(SharedManager.prototype, 'syncAdvancedContinuityArtifacts').mockResolvedValue(undefined);
     const syncMcpSpy = spyOn(InstanceManager.prototype, 'syncMcpServers').mockImplementation(
       () => false
     );
 
-    const registryPath = path.join(tempRoot, '.claude', 'plugins', 'known_marketplaces.json');
+    const globalRegistryPath = path.join(claudeDir(), 'plugins', 'known_marketplaces.json');
     writeMarketplaceRegistry(
-      registryPath,
+      globalRegistryPath,
       path.join(
         tempRoot,
         '.ccs',
@@ -220,20 +218,51 @@ describe('InstanceManager MCP sync', () => {
     const manager = new InstanceManager();
     const instancePath = await manager.ensureInstance('work', { mode: 'isolated' });
 
-    const expected = path.join(
+    expectMarketplaceLocation(globalRegistryPath, marketplacePath(claudeDir()));
-      tempRoot,
+    expectMarketplaceLocation(
-      '.claude',
+      path.join(instancePath, 'plugins', 'known_marketplaces.json'),
-      'plugins',
+      marketplacePath(instancePath)
-      'marketplaces',
-      'claude-code-plugins'
     );
-    const normalizedShared = JSON.parse(fs.readFileSync(registryPath, 'utf8'));
-    const normalizedInstance = JSON.parse(
-      fs.readFileSync(path.join(instancePath, 'plugins', 'known_marketplaces.json'), 'utf8')
-    );
-
-    expect(normalizedShared['claude-code-plugins'].installLocation).toBe(expected);
-    expect(normalizedInstance['claude-code-plugins'].installLocation).toBe(expected);
     expect(syncMcpSpy).toHaveBeenCalledWith(instancePath);
   });
+
+  it('keeps alternating instances independently valid for Claude Code validation', async () => {
+    spyOn(SharedManager.prototype, 'syncProjectContext').mockResolvedValue(undefined);
+    spyOn(SharedManager.prototype, 'syncAdvancedContinuityArtifacts').mockResolvedValue(undefined);
+    spyOn(InstanceManager.prototype, 'syncMcpServers').mockImplementation(() => false);
+
+    const globalRegistryPath = path.join(claudeDir(), 'plugins', 'known_marketplaces.json');
+    writeMarketplaceRegistry(
+      globalRegistryPath,
+      path.join(tempRoot, '.claude', 'plugins', 'marketplaces', 'claude-code-plugins')
+    );
+
+    const manager = new InstanceManager();
+    const workPath = await manager.ensureInstance('work', { mode: 'isolated' });
+    const personalPath = await manager.ensureInstance('personal', { mode: 'isolated' });
+    await manager.ensureInstance('work', { mode: 'isolated' });
+
+    const workInstallLocation = (
+      readJson(path.join(workPath, 'plugins', 'known_marketplaces.json')) as Record<
+        string,
+        { installLocation?: string }
+      >
+    )['claude-code-plugins']?.installLocation;
+    const personalInstallLocation = (
+      readJson(path.join(personalPath, 'plugins', 'known_marketplaces.json')) as Record<
+        string,
+        { installLocation?: string }
+      >
+    )['claude-code-plugins']?.installLocation;
+
+    expect(workInstallLocation).toBe(marketplacePath(workPath));
+    expect(personalInstallLocation).toBe(marketplacePath(personalPath));
+    expect(path.resolve(workInstallLocation ?? '')).toStartWith(
+      path.resolve(path.join(workPath, 'plugins', 'marketplaces'))
+    );
+    expect(path.resolve(personalInstallLocation ?? '')).toStartWith(
+      path.resolve(path.join(personalPath, 'plugins', 'marketplaces'))
+    );
+    expectMarketplaceLocation(globalRegistryPath, marketplacePath(claudeDir()));
+  });
 });

tests/unit/shared-manager.test.ts

@@ -1,19 +1,12 @@
-/**
+import { afterEach, beforeEach, describe, expect, it, mock, spyOn } from 'bun:test';
- * Unit tests for SharedManager - plugin registry path normalization
- */
-import { describe, it, expect, beforeEach, afterEach, mock, spyOn } from 'bun:test';
 import * as fs from 'fs';
-import * as path from 'path';
 import * as os from 'os';
+import * as path from 'path';
 import SharedManager, {
+  normalizePluginMetadataContent,
   normalizePluginMetadataPathString,
 } from '../../src/management/shared-manager';
 
-// Test the normalization regex pattern directly
-const normalizePluginPaths = (content: string): string => {
-  return normalizePluginMetadataPathString(content);
-};
-
 describe('SharedManager', () => {
   let tempRoot = '';
   let originalHome: string | undefined;
@@ -21,6 +14,24 @@ describe('SharedManager', () => {
   let originalCcsDir: string | undefined;
   let originalPlatform: PropertyDescriptor | undefined;
 
+  const claudeDir = () => path.join(tempRoot, '.claude');
+  const ccsDir = () => path.join(tempRoot, '.ccs');
+  const instanceDir = (name: string) => path.join(ccsDir(), 'instances', name);
+  const marketplacePath = (configDir: string, name = 'claude-code-plugins') =>
+    path.join(configDir, 'plugins', 'marketplaces', name);
+  const readJson = (filePath: string) =>
+    JSON.parse(fs.readFileSync(filePath, 'utf8')) as Record<string, unknown>;
+
+  function writeJson(filePath: string, value: unknown): void {
+    fs.mkdirSync(path.dirname(filePath), { recursive: true });
+    fs.writeFileSync(filePath, JSON.stringify(value, null, 2), 'utf8');
+  }
+
+  function readMarketplaceLocation(filePath: string, name = 'claude-code-plugins'): string {
+    const parsed = readJson(filePath) as Record<string, { installLocation?: string }>;
+    return parsed[name]?.installLocation ?? '';
+  }
+
   beforeEach(() => {
     tempRoot = fs.mkdtempSync(path.join(os.tmpdir(), 'ccs-shared-manager-test-'));
     originalHome = process.env.HOME;
@@ -55,218 +66,173 @@ describe('SharedManager', () => {
     }
   });
 
-  describe('normalizePluginRegistryPaths', () => {
+  describe('plugin metadata path normalization', () => {
-    describe('regex pattern', () => {
+    it('rewrites instance plugin paths to the requested target config dir', () => {
-      it('should replace instance paths with canonical claude path', () => {
+      const targetConfigDir = path.join('/home/user', '.claude');
-        const input = '/home/user/.ccs/instances/ck/plugins/cache/plugin/0.0.2';
+      const input = '/home/user/.ccs/instances/work/plugins/cache/plugin/0.0.2';
-        const expected = '/home/user/.claude/plugins/cache/plugin/0.0.2';
-        expect(normalizePluginPaths(input)).toBe(expected);
-      });
 
-      it('should handle different instance names', () => {
+      expect(normalizePluginMetadataPathString(input, targetConfigDir)).toBe(
-        const inputs = [
+        '/home/user/.claude/plugins/cache/plugin/0.0.2'
-          '/home/user/.ccs/instances/work/plugins/cache/plugin/1.0.0',
+      );
-          '/home/user/.ccs/instances/personal/plugins/cache/plugin/1.0.0',
+    });
-          '/home/user/.ccs/instances/test-account/plugins/cache/plugin/1.0.0',
-        ];
-        for (const input of inputs) {
-          expect(normalizePluginPaths(input)).toContain('/.claude/');
-          expect(normalizePluginPaths(input)).not.toContain('/.ccs/instances/');
-        }
-      });
 
-      it('should handle multiple occurrences', () => {
+    it('rewrites shared plugin paths to an instance-local target config dir', () => {
-        const input = JSON.stringify({
+      const targetConfigDir = instanceDir('personal');
+      const input = path.join(tempRoot, '.ccs', 'shared', 'plugins', 'marketplaces', 'official');
+
+      expect(normalizePluginMetadataPathString(input, targetConfigDir)).toBe(
+        marketplacePath(targetConfigDir, 'official')
+      );
+    });
+
+    it('normalizes all matching JSON string values without changing the structure', () => {
+      const targetConfigDir = instanceDir('work');
+      const input = JSON.stringify(
+        {
           plugins: {
-            'plugin-a': [{ installPath: '/home/user/.ccs/instances/ck/plugins/a' }],
+            'plugin-a': [
-            'plugin-b': [{ installPath: '/home/user/.ccs/instances/work/plugins/b' }],
-          },
-        });
-        const result = normalizePluginPaths(input);
-        expect(result).not.toContain('/.ccs/instances/');
-        expect(result.match(/\.claude/g)?.length).toBe(2);
-      });
-
-      it('should not modify already-canonical paths', () => {
-        const input = '/home/user/.claude/plugins/cache/plugin/0.0.2';
-        expect(normalizePluginPaths(input)).toBe(input);
-      });
-
-      it('should be idempotent', () => {
-        const input = '/home/user/.ccs/instances/ck/plugins/cache/plugin/0.0.2';
-        const first = normalizePluginPaths(input);
-        const second = normalizePluginPaths(first);
-        expect(first).toBe(second);
-      });
-
-      it('should preserve JSON structure', () => {
-        const original = {
-          version: 2,
-          plugins: {
-            'claude-hud@claude-hud': [
               {
-                scope: 'user',
+                installPath: path.join(
-                installPath:
+                  tempRoot,
-                  '/home/kai/.ccs/instances/ck/plugins/cache/claude-hud/claude-hud/0.0.2',
+                  '.ccs',
-                version: '0.0.2',
+                  'instances',
+                  'old',
+                  'plugins',
+                  'cache',
+                  'plugin-a'
+                ),
               },
             ],
           },
-        };
+          marketplaces: {
-        const input = JSON.stringify(original, null, 2);
+            official: {
-        const result = normalizePluginPaths(input);
+              installLocation: path.join(
-
+                tempRoot,
-        // Should be valid JSON
+                '.claude',
-        expect(() => JSON.parse(result)).not.toThrow();
+                'plugins',
-
+                'marketplaces',
-        // Should have normalized path
+                'official'
-        const parsed = JSON.parse(result);
+              ),
-        expect(parsed.plugins['claude-hud@claude-hud'][0].installPath).toBe(
+            },
-          '/home/kai/.claude/plugins/cache/claude-hud/claude-hud/0.0.2'
-        );
-      });
-
-      it('should normalize marketplace installLocation values', () => {
-        const original = {
-          'claude-code-plugins': {
-            installLocation:
-              '/home/kai/.ccs/instances/work/plugins/marketplaces/claude-code-plugins',
           },
-        };
+        },
-        const input = JSON.stringify(original, null, 2);
+        null,
-        const result = normalizePluginPaths(input);
+        2
+      );
 
-        expect(() => JSON.parse(result)).not.toThrow();
+      const normalized = JSON.parse(normalizePluginMetadataContent(input, targetConfigDir)) as {
+        plugins: { 'plugin-a': [{ installPath: string }] };
+        marketplaces: { official: { installLocation: string } };
+      };
 
-        const parsed = JSON.parse(result);
+      expect(normalized.plugins['plugin-a'][0].installPath).toBe(
-        expect(parsed['claude-code-plugins'].installLocation).toBe(
+        path.join(targetConfigDir, 'plugins', 'cache', 'plugin-a')
-          '/home/kai/.claude/plugins/marketplaces/claude-code-plugins'
+      );
-        );
+      expect(normalized.marketplaces.official.installLocation).toBe(
-      });
+        marketplacePath(targetConfigDir, 'official')
+      );
     });
 
-    describe('edge cases', () => {
+    it('preserves paths already rooted at the target config dir', () => {
-      it('should handle empty object', () => {
+      const targetConfigDir = instanceDir('work');
-        const input = JSON.stringify({});
+      const input = path.join(targetConfigDir, 'plugins', 'cache', 'plugin-a');
-        expect(normalizePluginPaths(input)).toBe(input);
-      });
 
-      it('should handle plugins without installPath', () => {
+      expect(normalizePluginMetadataPathString(input, targetConfigDir)).toBe(input);
-        const input = JSON.stringify({ plugins: {} });
+    });
-        expect(normalizePluginPaths(input)).toBe(input);
-      });
 
-      it('should handle Windows-style paths (backslash)', () => {
+    it('handles Windows path separators', () => {
-        const input = 'C:\\Users\\user\\.ccs\\instances\\ck\\plugins\\cache';
+      const targetConfigDir = 'C:\\Users\\user\\.claude';
-        expect(normalizePluginPaths(input)).toBe('C:\\Users\\user\\.claude\\plugins\\cache');
+      const input = 'C:\\Users\\user\\.ccs\\instances\\work\\plugins\\marketplaces\\official';
-      });
+
+      expect(normalizePluginMetadataPathString(input, targetConfigDir)).toBe(
+        'C:\\Users\\user\\.claude\\plugins\\marketplaces\\official'
+      );
     });
   });
 
-  describe('normalizeMarketplaceRegistryPaths', () => {
+  describe('marketplace registry ownership', () => {
-    it('rewrites known_marketplaces.json on disk', () => {
+    it('writes global and instance registries with different authoritative install locations', () => {
-      const pluginsDir = path.join(tempRoot, '.claude', 'plugins');
+      const globalRegistryPath = path.join(claudeDir(), 'plugins', 'known_marketplaces.json');
-      fs.mkdirSync(pluginsDir, { recursive: true });
+      writeJson(globalRegistryPath, {
+        'claude-code-plugins': {
+          installLocation: path.join(
+            tempRoot,
+            '.ccs',
+            'instances',
+            'work',
+            'plugins',
+            'marketplaces',
+            'claude-code-plugins'
+          ),
+        },
+      });
 
-      const registryPath = path.join(pluginsDir, 'known_marketplaces.json');
+      const instancePath = instanceDir('personal');
-      fs.writeFileSync(
+      fs.mkdirSync(instancePath, { recursive: true });
-        registryPath,
-        JSON.stringify(
-          {
-            'claude-code-plugins': {
-              installLocation:
-                '/home/kai/.ccs/instances/work/plugins/marketplaces/claude-code-plugins',
-            },
-          },
-          null,
-          2
-        ),
-        'utf8'
-      );
 
       const manager = new SharedManager();
-      manager.normalizeMarketplaceRegistryPaths();
+      manager.linkSharedDirectories(instancePath);
 
-      const normalized = JSON.parse(fs.readFileSync(registryPath, 'utf8'));
+      const instanceRegistryPath = path.join(instancePath, 'plugins', 'known_marketplaces.json');
-      expect(normalized['claude-code-plugins'].installLocation).toBe(
+      expect(readMarketplaceLocation(globalRegistryPath)).toBe(marketplacePath(claudeDir()));
-        '/home/kai/.claude/plugins/marketplaces/claude-code-plugins'
+      expect(readMarketplaceLocation(instanceRegistryPath)).toBe(marketplacePath(instancePath));
-      );
+      expect(fs.lstatSync(path.join(instancePath, 'plugins')).isSymbolicLink()).toBe(false);
+      expect(fs.lstatSync(instanceRegistryPath).isSymbolicLink()).toBe(false);
     });
 
-    it('rewrites Windows-style known_marketplaces.json paths on disk', () => {
+    it('self-heals missing installLocation from discovered marketplace payloads', () => {
-      const pluginsDir = path.join(tempRoot, '.claude', 'plugins');
-      fs.mkdirSync(pluginsDir, { recursive: true });
-
-      const registryPath = path.join(pluginsDir, 'known_marketplaces.json');
-      fs.writeFileSync(
-        registryPath,
-        JSON.stringify(
-          {
-            'claude-code-plugins': {
-              installLocation:
-                'C:\\Users\\kai\\.ccs\\instances\\work\\plugins\\marketplaces\\claude-code-plugins',
-            },
-          },
-          null,
-          2
-        ),
-        'utf8'
-      );
-
       const manager = new SharedManager();
-      manager.normalizeMarketplaceRegistryPaths();
+      const instancePath = instanceDir('work');
+      fs.mkdirSync(instancePath, { recursive: true });
+      manager.linkSharedDirectories(instancePath);
 
-      const normalized = JSON.parse(fs.readFileSync(registryPath, 'utf8'));
+      fs.mkdirSync(marketplacePath(claudeDir()), { recursive: true });
-      expect(normalized['claude-code-plugins'].installLocation).toBe(
+      writeJson(path.join(instancePath, 'plugins', 'known_marketplaces.json'), {
-        'C:\\Users\\kai\\.claude\\plugins\\marketplaces\\claude-code-plugins'
+        'claude-code-plugins': {
-      );
+          label: 'Official marketplace',
+        },
+      });
+
+      manager.normalizeMarketplaceRegistryPaths(instancePath);
+
+      const repaired = readJson(
+        path.join(instancePath, 'plugins', 'known_marketplaces.json')
+      ) as Record<string, { label?: string; installLocation?: string }>;
+      expect(repaired['claude-code-plugins']).toEqual({
+        label: 'Official marketplace',
+        installLocation: marketplacePath(instancePath),
+      });
     });
 
-    it('normalizes copied shared and instance metadata under Windows fallback', () => {
+    it('keeps the instance-local registry valid under Windows copy fallback', () => {
       Object.defineProperty(process, 'platform', { value: 'win32' });
       spyOn(fs, 'symlinkSync').mockImplementation(() => {
         throw Object.assign(new Error('simulated symlink failure'), { code: 'EPERM' });
       });
 
-      const pluginsDir = path.join(tempRoot, '.claude', 'plugins');
+      const globalRegistryPath = path.join(claudeDir(), 'plugins', 'known_marketplaces.json');
-      fs.mkdirSync(pluginsDir, { recursive: true });
+      writeJson(globalRegistryPath, {
+        'claude-code-plugins': {
+          installLocation: path.join(
+            tempRoot,
+            '.claude',
+            'plugins',
+            'marketplaces',
+            'claude-code-plugins'
+          ),
+        },
+      });
 
-      const registryPath = path.join(pluginsDir, 'known_marketplaces.json');
+      const instancePath = instanceDir('personal');
-      fs.writeFileSync(
+      fs.mkdirSync(instancePath, { recursive: true });
-        registryPath,
-        JSON.stringify(
-          {
-            'claude-code-plugins': {
-              installLocation:
-                '/home/kai/.ccs/instances/work/plugins/marketplaces/claude-code-plugins',
-            },
-          },
-          null,
-          2
-        ),
-        'utf8'
-      );
 
       const manager = new SharedManager();
-      const instancePath = path.join(tempRoot, '.ccs', 'instances', 'personal');
-      fs.mkdirSync(instancePath, { recursive: true });
       manager.linkSharedDirectories(instancePath);
 
-      const expected = '/home/kai/.claude/plugins/marketplaces/claude-code-plugins';
+      const instanceRegistryPath = path.join(instancePath, 'plugins', 'known_marketplaces.json');
-      const claudeRegistry = JSON.parse(fs.readFileSync(registryPath, 'utf8'));
+      expect(readMarketplaceLocation(globalRegistryPath)).toBe(marketplacePath(claudeDir()));
-      const sharedRegistry = JSON.parse(
+      expect(readMarketplaceLocation(instanceRegistryPath)).toBe(marketplacePath(instancePath));
-        fs.readFileSync(
+      expect(fs.existsSync(path.join(instancePath, 'plugins', 'marketplaces'))).toBe(true);
-          path.join(tempRoot, '.ccs', 'shared', 'plugins', 'known_marketplaces.json'),
-          'utf8'
-        )
-      );
-      const instanceRegistry = JSON.parse(
-        fs.readFileSync(path.join(instancePath, 'plugins', 'known_marketplaces.json'), 'utf8')
-      );
-
-      expect(claudeRegistry['claude-code-plugins'].installLocation).toBe(expected);
-      expect(sharedRegistry['claude-code-plugins'].installLocation).toBe(expected);
-      expect(instanceRegistry['claude-code-plugins'].installLocation).toBe(expected);
     });
   });
 });