diff --git a/apps/cli/src/lib/message-handler.ts b/apps/cli/src/lib/message-handler.ts
index ed64fce45..71d491871 100644
--- a/apps/cli/src/lib/message-handler.ts
+++ b/apps/cli/src/lib/message-handler.ts
@@ -3810,7 +3810,12 @@ export class MessageHandler {
       this.getMachineFlockDocIdForMachine()
     );
     return readMachineFlockRowsFromFlock(handle.flock, {
-      families: ['archiveSessionCommand', 'deleteSessionCommand', 'deleteLocalProjectCommand'],
+      families: [
+        'archiveSessionCommand',
+        'deleteSessionCommand',
+        'deleteLocalProjectCommand',
+        'localProject',
+      ],
     });
   }
 
@@ -3968,9 +3973,10 @@ export class MessageHandler {
     this.logger.debug(`[${sessionId}] Preview tunnel closed for archive`);
 
     const sessionRoomId = getSessionRoomId(sessionId);
-    const [sessionMetaDoc, archiveMachineMetaDoc] = await Promise.all([
+    const [sessionMetaDoc, archiveMachineMetaDoc, archiveMachineFlockRows] = await Promise.all([
       this.workspaceDocument.repo.getDocMeta(sessionRoomId),
       this.workspaceDocument.repo.getDocMeta(getMachineRoomId(this.machineId)),
+      this.tryReadMachineFlockCommandRows(),
     ]);
     const sessionMeta = sessionMetaDoc?.meta as SessionMeta | undefined;
     const archiveMachineMeta = archiveMachineMetaDoc?.meta as MachineLegacyMetaFields | undefined;
@@ -3986,6 +3992,7 @@ export class MessageHandler {
       const cleanupTarget = this.resolveWorktreeCleanupTarget({
         sessionMeta,
         machineMeta: archiveMachineMeta,
+        machineFlockRows: archiveMachineFlockRows,
       });
       if (cleanupTarget) {
         const worktreeManager = getWorktreeManager(this.buildWorktreeManagerConfig(cleanupTarget));
diff --git a/apps/cli/tests/message-handler-terminal-cleanup.test.ts b/apps/cli/tests/message-handler-terminal-cleanup.test.ts
index 30963d92c..11f520f60 100644
--- a/apps/cli/tests/message-handler-terminal-cleanup.test.ts
+++ b/apps/cli/tests/message-handler-terminal-cleanup.test.ts
@@ -224,6 +224,63 @@ function createHarness(options?: {
 }
 
 describe('MessageHandler terminal cleanup', () => {
+  it('cleans a local worktree when its project metadata exists only in the machine Flock', async () => {
+    const localProjectId = 'local-project-archive' as LocalProjectId;
+    const testDir = fs.mkdtempSync(path.join(os.tmpdir(), 'lody-archive-project-'));
+    const originalDataDir = process.env.LODY_DATA_DIR;
+    const originalLocksDir = process.env.LODY_LOCKS_DIR;
+    process.env.LODY_DATA_DIR = path.join(testDir, 'data');
+    process.env.LODY_LOCKS_DIR = path.join(testDir, 'locks');
+    const rootPath = createLocalRepo(testDir);
+    const sessionId = 'session-archive-worktree' as SessionId;
+    const sessionMeta = {
+      id: sessionId,
+      machineId: 'machine-1',
+      createdAt: '2026-01-01T00:00:00.000Z',
+      userId: 'user-1',
+      cliType: 'codex',
+      agentType: 'codex',
+      status: SessionStatusFactory.idle(),
+      project: { kind: 'local', localProjectId },
+      isWorktree: true,
+    } as SessionMeta;
+    const machineFlockRows = [
+      {
+        key: machineFlockKeys.localProject(localProjectId),
+        value: {
+          id: localProjectId,
+          name: 'Project',
+          rootPath,
+          createdAtMs: 1,
+        },
+      },
+    ];
+    try {
+      const manager = getWorktreeManager({
+        repoId: deriveRepoIdFromLocalProjectPath(rootPath),
+        source: { kind: 'local-shared', originalRootPath: rootPath },
+        logger: createSilentLogger(),
+      });
+      const worktree = await manager.createWorktree(sessionId);
+      const { handler, sessionManager } = createHarness({
+        sessionId,
+        sessionMetas: [sessionMeta],
+        machineFlockRows,
+      });
+
+      await handler.archiveSessionResources(sessionId);
+
+      expect(fs.existsSync(worktree.hostPath)).toBe(false);
+      expect(sessionManager.archiveSession).toHaveBeenCalledWith(sessionId);
+    } finally {
+      if (originalDataDir === undefined) delete process.env.LODY_DATA_DIR;
+      else process.env.LODY_DATA_DIR = originalDataDir;
+      if (originalLocksDir === undefined) delete process.env.LODY_LOCKS_DIR;
+      else process.env.LODY_LOCKS_DIR = originalLocksDir;
+      fs.rmSync(testDir, { recursive: true, force: true });
+    }
+  });
+
   it('closes session terminals when archiving resources even without an active session', async () => {
     const { handler, sessionId, closeSessionTerminals, sessionManager } = createHarness();