diff --git a/packages/server/src/server/agent/tools/paseo-tools.ts b/packages/server/src/server/agent/tools/paseo-tools.ts
index 6136da3c8f..dae9c16f4f 100644
--- a/packages/server/src/server/agent/tools/paseo-tools.ts
+++ b/packages/server/src/server/agent/tools/paseo-tools.ts
@@ -112,7 +112,7 @@ export interface PaseoToolHostDependencies {
   github?: ForgeService;
   workspaceGitService?: Pick<
     WorkspaceGitService,
-    "getSnapshot" | "listWorktrees" | "resolveRepoRoot"
+    "getSnapshot" | "listWorktrees" | "resolveRepoRoot" | "invalidateWorktrees"
   >;
   findWorkspaceIdForCwd?: ArchiveDependencies["findWorkspaceIdForCwd"];
   listActiveWorkspaces?: ArchiveDependencies["listActiveWorkspaces"];
diff --git a/packages/server/src/server/test-utils/workspace-git-service-stub.ts b/packages/server/src/server/test-utils/workspace-git-service-stub.ts
index e7747f57ae..53b8a44c1e 100644
--- a/packages/server/src/server/test-utils/workspace-git-service-stub.ts
+++ b/packages/server/src/server/test-utils/workspace-git-service-stub.ts
@@ -55,6 +55,7 @@ export function createNoopWorkspaceGitService(
     suggestBranchesForCwd: async () => [],
     listStashes: async () => [],
     listWorktrees: async () => [],
+    invalidateWorktrees: () => {},
     getProjectSlug: async (cwd: string) => {
       const snapshot = createNoGitWorkspaceRuntimeSnapshot(cwd);
       return deriveProjectSlug(cwd, snapshot.git.isGit ? snapshot.git.remoteUrl : null);
diff --git a/packages/server/src/server/websocket-server.ts b/packages/server/src/server/websocket-server.ts
index 0f145d8396..219e04b0c2 100644
--- a/packages/server/src/server/websocket-server.ts
+++ b/packages/server/src/server/websocket-server.ts
@@ -246,6 +246,7 @@ function createFallbackWorkspaceGitService(): WorkspaceGitService {
     suggestBranchesForCwd: async () => [],
     listStashes: async () => [],
     listWorktrees: async () => [],
+    invalidateWorktrees: () => {},
     getProjectSlug: async (cwd: string) => {
       const snapshot = createFallbackWorkspaceGitSnapshot(cwd);
       return deriveProjectSlug(cwd, snapshot.git.isGit ? snapshot.git.remoteUrl : null);
diff --git a/packages/server/src/server/workspace-archive-record-scoped.e2e.test.ts b/packages/server/src/server/workspace-archive-record-scoped.e2e.test.ts
index cc05d496ba..87cb758ac5 100644
--- a/packages/server/src/server/workspace-archive-record-scoped.e2e.test.ts
+++ b/packages/server/src/server/workspace-archive-record-scoped.e2e.test.ts
@@ -1,10 +1,13 @@
-import { execFileSync, spawn } from "node:child_process";
+import { execFile, execFileSync, spawn } from "node:child_process";
 import { existsSync, mkdtempSync, rmSync, writeFileSync } from "node:fs";
 import { tmpdir } from "node:os";
 import path from "node:path";
+import { fileURLToPath } from "node:url";
+import { promisify } from "node:util";
 import { afterEach, beforeEach, expect, test } from "vitest";
 
 import { getFullAccessConfig } from "./daemon-e2e/agent-configs.js";
+import { createWorktree } from "../utils/worktree.js";
 import {
   createDaemonTestContext,
   DaemonClient,
@@ -54,6 +57,32 @@ function createGitRepo(): string {
   return repoDir;
 }
 
+async function runCli(args: string[], cwd: string): Promise<string> {
+  const result = await promisify(execFile)(
+    process.execPath,
+    [
+      "--conditions=source",
+      "--import",
+      import.meta.resolve("tsx"),
+      fileURLToPath(new URL("../../../cli/src/index.ts", import.meta.url)),
+      "--host",
+      `127.0.0.1:${ctx.daemon.port}`,
+      ...args,
+    ],
+    {
+      cwd,
+      env: {
+        ...Object.fromEntries(
+          Object.entries(process.env).filter(([key]) => !key.startsWith("PASEO_")),
+        ),
+        PASEO_HOME: ctx.daemon.paseoHome,
+      },
+      timeout: 20000,
+    },
+  );
+  return result.stdout;
+}
+
 async function createLocalWorkspace(cwd: string, title: string): Promise<string> {
   const result = await ctx.client.createWorkspace({
     source: { kind: "directory", path: cwd },
@@ -248,6 +277,78 @@ test("renaming a workspace updates every subscribed client", async () => {
   }
 });
 
+test.each(["worktree", "workspace"] as const)(
+  "%s archive immediately removes the deleted worktree from a warm CLI listing",
+  async (command) => {
+    const repoDir = createGitRepo();
+    const created = await ctx.client.createWorkspace({
+      source: {
+        kind: "worktree",
+        cwd: repoDir,
+        worktreeSlug: "cached-worktree",
+        baseBranch: "main",
+      },
+    });
+    const workspace = created.workspace;
+    if (!workspace?.workspaceDirectory) {
+      throw new Error(created.error ?? "Failed to create worktree workspace");
+    }
+    const worktreePath = workspace.workspaceDirectory;
+    const name = path.basename(worktreePath);
+    const before = JSON.parse(await runCli(["worktree", "ls", "--json"], repoDir));
+    expect(before).toEqual([expect.objectContaining({ name, cwd: worktreePath })]);
+
+    await runCli(
+      [command, "archive", command === "worktree" ? name : workspace.id, "--json"],
+      repoDir,
+    );
+    expect(existsSync(worktreePath)).toBe(false);
+    expect(
+      execFileSync("git", ["worktree", "list", "--porcelain"], { cwd: repoDir }).toString(),
+    ).not.toContain(worktreePath);
+    const after = JSON.parse(await runCli(["worktree", "ls", "--json"], repoDir));
+    console.log(
+      `${command} archive: warm listing=${JSON.stringify(before)}\nimmediate listing=${JSON.stringify(after)}`,
+    );
+    expect(after).toEqual([]);
+  },
+  60000,
+);
+
+test("archiving an unregistered worktree in a bare repo clears the main checkout listing", async () => {
+  const sourceRepo = createGitRepo();
+  const repoRoot = makeTempDir("workspace-archive-bare-");
+  const bareRepo = path.join(repoRoot, "repo.git");
+  const mainCheckout = path.join(repoRoot, "main");
+  execFileSync("git", ["clone", "--bare", sourceRepo, bareRepo], { stdio: "pipe" });
+  execFileSync("git", ["worktree", "add", mainCheckout, "main"], {
+    cwd: bareRepo,
+    stdio: "pipe",
+  });
+  const { worktreePath } = await createWorktree({
+    cwd: mainCheckout,
+    source: { kind: "branch-off", baseBranch: "main", branchName: "cached-bare-worktree" },
+    worktreeSlug: "cached-bare-worktree",
+    runSetup: false,
+    paseoHome: ctx.daemon.paseoHome,
+  });
+  expect(await activeWorkspaceIds()).toEqual(new Set());
+  const name = path.basename(worktreePath);
+  const before = JSON.parse(await runCli(["worktree", "ls", "--json"], mainCheckout));
+  expect(before).toEqual([expect.objectContaining({ name, cwd: worktreePath })]);
+
+  await runCli(["worktree", "archive", name, "--json"], mainCheckout);
+  expect(existsSync(worktreePath)).toBe(false);
+  expect(
+    execFileSync("git", ["worktree", "list", "--porcelain"], { cwd: mainCheckout }).toString(),
+  ).not.toContain(worktreePath);
+  const after = JSON.parse(await runCli(["worktree", "ls", "--json"], mainCheckout));
+  console.log(
+    `bare repo archive: warm listing=${JSON.stringify(before)}\nimmediate listing=${JSON.stringify(after)}`,
+  );
+  expect(after).toEqual([]);
+}, 60000);
+
 test("archiving the last reference to a worktree removes it from disk regardless of the disk flag", async () => {
   const repoDir = createGitRepo();
 
diff --git a/packages/server/src/server/workspace-archive-service.test.ts b/packages/server/src/server/workspace-archive-service.test.ts
index c3b77f7070..d1cfb8ada7 100644
--- a/packages/server/src/server/workspace-archive-service.test.ts
+++ b/packages/server/src/server/workspace-archive-service.test.ts
@@ -140,7 +140,8 @@ function createArchiveDeps(input: ArchiveDepsInput): ArchiveTestDependencies {
     github: createGitHubServiceStub(),
     workspaceGitService: {
       getSnapshot: vi.fn(async () => null),
-    } as unknown as Pick<WorkspaceGitService, "getSnapshot">,
+      invalidateWorktrees: () => {},
+    } as unknown as Pick<WorkspaceGitService, "getSnapshot" | "invalidateWorktrees">,
     agentManager: {
       listAgents: () => [],
       getAgent: () => null,
@@ -617,28 +618,37 @@ describe("archiveByScope", () => {
     expect(deps.emitWorkspaceUpdatesForWorkspaceIds).not.toHaveBeenCalled();
   });
 
-  test("worktree scope removes an owned directory with zero matching records", async () => {
-    const { tempDir, repoDir } = createGitRepo();
-    const paseoHome = path.join(tempDir, ".paseo");
-    const worktree = await createPaseoOwnedWorktree(repoDir, paseoHome, "zero-records");
+  test.each(["intact", "missing"] as const)(
+    "worktree scope removes an owned directory with zero matching records and %s Git administration",
+    async (gitAdministration) => {
+      const { tempDir, repoDir } = createGitRepo();
+      const paseoHome = path.join(tempDir, ".paseo");
+      const worktree = await createPaseoOwnedWorktree(repoDir, paseoHome, "zero-records");
+      if (gitAdministration === "missing") {
+        const gitDir = execFileSync("git", ["rev-parse", "--absolute-git-dir"], {
+          cwd: worktree.worktreePath,
+        })
+          .toString()
+          .trim();
+        rmSync(gitDir, { recursive: true, force: true });
+      }
+      const dependencies = createArchiveDeps({ paseoHome, activeWorkspaces: [] });
+      const invalidateWorktrees = vi.fn();
+      dependencies.workspaceGitService.invalidateWorktrees = invalidateWorktrees;
 
-    const result = await archiveByScope(
-      createArchiveDeps({
-        paseoHome,
-        activeWorkspaces: [],
-      }),
-      {
+      const result = await archiveByScope(dependencies, {
         scope: { kind: "worktree", targetPath: worktree.worktreePath },
         requestId: "req-zero-records",
-      },
-    );
+      });
 
-    assertArchiveResult(result, {
-      archivedWorkspaceIds: [],
-      removedDirectory: true,
-    });
-    expect(existsSync(worktree.worktreePath)).toBe(false);
-  });
+      assertArchiveResult(result, {
+        archivedWorkspaceIds: [],
+        removedDirectory: true,
+      });
+      expect(existsSync(worktree.worktreePath)).toBe(false);
+      expect(invalidateWorktrees).toHaveBeenCalledTimes(1);
+    },
+  );
 
   test("marks archiving, emits an upsert carrying the archiving state, then clears it and emits a remove", async () => {
     const { tempDir, repoDir } = createGitRepo();
diff --git a/packages/server/src/server/workspace-archive-service.ts b/packages/server/src/server/workspace-archive-service.ts
index 4c61dcb172..e9e58681a1 100644
--- a/packages/server/src/server/workspace-archive-service.ts
+++ b/packages/server/src/server/workspace-archive-service.ts
@@ -32,7 +32,7 @@ export interface ArchiveDependencies {
   // Base directory that may hold worktrees across repositories.
   paseoWorktreesBaseRoot?: string;
   github: ForgeService;
-  workspaceGitService: Pick<WorkspaceGitService, "getSnapshot">;
+  workspaceGitService: Pick<WorkspaceGitService, "getSnapshot" | "invalidateWorktrees">;
   agentManager: Pick<AgentManager, "listAgents" | "getAgent" | "archiveAgent" | "archiveSnapshot">;
   agentStorage: Pick<AgentStorage, "listByWorkspace">;
   // Resolves the worktree at a path to its workspaceId for archive-by-path. The
@@ -408,6 +408,7 @@ async function maybeRemoveDirectory(
       paseoHome: dependencies.paseoHome,
       worktreesBaseRoot: dependencies.paseoWorktreesBaseRoot,
     });
+    dependencies.workspaceGitService.invalidateWorktrees();
     dependencies.github.invalidate({ cwd: backing.path });
     return true;
   } catch (error) {
diff --git a/packages/server/src/server/workspace-git-service.primitive.test.ts b/packages/server/src/server/workspace-git-service.primitive.test.ts
index 65eb4a0ad5..ce052cdd7c 100644
--- a/packages/server/src/server/workspace-git-service.primitive.test.ts
+++ b/packages/server/src/server/workspace-git-service.primitive.test.ts
@@ -1819,6 +1819,46 @@ describe("WorkspaceGitServiceImpl D2 read methods", () => {
     service.dispose();
   });
 
+  test("invalidating worktrees discards warm listings across checkout roots and in-flight reads", async () => {
+    const worktrees = [
+      {
+        path: "/tmp/paseo-home/worktrees/repo/feature",
+        createdAt: "2026-04-12T00:00:00.000Z",
+        branchName: "feature",
+      },
+    ];
+    const readStarted = createDeferred<void>();
+    const oldRead = createDeferred<typeof worktrees>();
+    const alternateCheckout = resolvePath("/tmp/alternate-checkout");
+    let reads = 0;
+    const service = createService({
+      listPaseoWorktrees: async () => {
+        reads += 1;
+        if (reads <= 2) return worktrees;
+        if (reads === 3) {
+          readStarted.resolve();
+          return oldRead.promise;
+        }
+        return [];
+      },
+    });
+    try {
+      await expect(service.listWorktrees(REPO_CWD)).resolves.toEqual(worktrees);
+      await expect(service.listWorktrees(alternateCheckout)).resolves.toEqual(worktrees);
+      const pending = service.listWorktrees(REPO_CWD, { force: true, reason: "test" });
+      await readStarted.promise;
+      service.invalidateWorktrees();
+      await expect(service.listWorktrees(REPO_CWD)).resolves.toEqual([]);
+      await expect(service.listWorktrees(alternateCheckout)).resolves.toEqual([]);
+      oldRead.resolve(worktrees);
+      await expect(pending).resolves.toEqual(worktrees);
+      await expect(service.listWorktrees(REPO_CWD)).resolves.toEqual([]);
+    } finally {
+      oldRead.resolve(worktrees);
+      await service.dispose();
+    }
+  });
+
   test("listWorktrees shares one repo-root scoped read across sibling workspace cwds", async () => {
     const tempDir = realpathSync(mkdtempSync(join(tmpdir(), "workspace-git-service-")));
     const repoDir = join(tempDir, "repo");
diff --git a/packages/server/src/server/workspace-git-service.ts b/packages/server/src/server/workspace-git-service.ts
index e62720e1c1..2f3483cb6f 100644
--- a/packages/server/src/server/workspace-git-service.ts
+++ b/packages/server/src/server/workspace-git-service.ts
@@ -241,6 +241,7 @@ export interface WorkspaceGitService {
     cwdOrRepoRoot: string,
     options?: WorkspaceGitReadOptions,
   ): Promise<WorkspaceGitWorktreeInfo[]>;
+  invalidateWorktrees(): void;
   getProjectSlug(cwd: string, options?: WorkspaceGitReadOptions): Promise<string>;
   resolveRepoRoot(cwd: string, options?: WorkspaceGitReadOptions): Promise<string>;
   resolveDefaultBranch(cwdOrRepoRoot: string, options?: WorkspaceGitReadOptions): Promise<string>;
@@ -918,6 +919,13 @@ export class WorkspaceGitServiceImpl implements WorkspaceGitService {
       : (snapshot.git.repoRoot ?? resolve(cwd));
   }
 
+  invalidateWorktrees(): void {
+    this.assertNotDisposed();
+    // Checkout paths can cache the same list under different roots, including bare repos.
+    // Detach in-flight reads too, so a pre-mutation result cannot refill the cache.
+    this.worktreeListCache.clear();
+  }
+
   async resolveDefaultBranch(
     cwdOrRepoRoot: string,
     options?: WorkspaceGitReadOptions,
diff --git a/packages/server/src/server/worktree-session.test.ts b/packages/server/src/server/worktree-session.test.ts
index 744ba0726a..b146c59f31 100644
--- a/packages/server/src/server/worktree-session.test.ts
+++ b/packages/server/src/server/worktree-session.test.ts
@@ -2017,6 +2017,7 @@ describe("handlePaseoWorktreeArchiveRequest worktree scope", () => {
         workspaceGitService: {
           getSnapshot: vi.fn(async () => null),
           listWorktrees: vi.fn(async () => []),
+          invalidateWorktrees: () => {},
         },
         agentManager: {
           listAgents: () => [],
@@ -2088,6 +2089,7 @@ describe("handlePaseoWorktreeArchiveRequest worktree scope", () => {
         workspaceGitService: {
           getSnapshot: vi.fn(async () => null),
           listWorktrees: vi.fn(async () => []),
+          invalidateWorktrees: () => {},
         },
         agentManager: {
           listAgents: () => [],
@@ -2164,6 +2166,7 @@ describe("handlePaseoWorktreeArchiveRequest worktree scope", () => {
         workspaceGitService: {
           getSnapshot: vi.fn(async () => null),
           listWorktrees: vi.fn(async () => []),
+          invalidateWorktrees: () => {},
         },
         agentManager: {
           listAgents: () => [],
@@ -2240,6 +2243,7 @@ describe("handlePaseoWorktreeArchiveRequest worktree scope", () => {
       workspaceGitService: {
         getSnapshot: vi.fn(async () => null),
         listWorktrees: vi.fn(async () => []),
+        invalidateWorktrees: () => {},
       },
       agentManager: {
         listAgents: () => [],
diff --git a/packages/server/src/server/worktree-session.ts b/packages/server/src/server/worktree-session.ts
index 6087e6c82a..cdb0119b64 100644
--- a/packages/server/src/server/worktree-session.ts
+++ b/packages/server/src/server/worktree-session.ts
@@ -501,7 +501,10 @@ export async function handlePaseoWorktreeArchiveRequest(
     "emitWorkspaceUpdatesForWorkspaceIds" | "workspaceGitService"
   > & {
     emit: EmitSessionMessage;
-    workspaceGitService: Pick<WorkspaceGitService, "getSnapshot" | "listWorktrees">;
+    workspaceGitService: Pick<
+      WorkspaceGitService,
+      "getSnapshot" | "listWorktrees" | "invalidateWorktrees"
+    >;
     emitWorkspaceUpdatesForWorkspaceIds: (workspaceIds: Iterable<string>) => Promise<void>;
   },
   msg: Extract<SessionInboundMessage, { type: "paseo_worktree_archive_request" }>,
diff --git a/packages/server/src/server/worktree/commands.ts b/packages/server/src/server/worktree/commands.ts
index cedc5013c9..4f76cb1887 100644
--- a/packages/server/src/server/worktree/commands.ts
+++ b/packages/server/src/server/worktree/commands.ts
@@ -93,7 +93,10 @@ export interface ArchiveCommandDependencies extends Omit<
   ArchiveDependencies,
   "workspaceGitService"
 > {
-  workspaceGitService: Pick<WorkspaceGitService, "getSnapshot" | "listWorktrees">;
+  workspaceGitService: Pick<
+    WorkspaceGitService,
+    "getSnapshot" | "listWorktrees" | "invalidateWorktrees"
+  >;
 }
 
 export interface ArchiveCommandInput {