diff --git a/src/crates/assembly/core/src/service/workspace/service.rs b/src/crates/assembly/core/src/service/workspace/service.rs
index 053f3ada54..9e77e86a8d 100644
--- a/src/crates/assembly/core/src/service/workspace/service.rs
+++ b/src/crates/assembly/core/src/service/workspace/service.rs
@@ -1748,7 +1748,12 @@ impl WorkspaceService {
                 .recent_workspaces
                 .clone()
                 .into_iter()
-                .filter(|id| manager.get_workspaces().contains_key(id))
+                .filter(|id| {
+                    manager.get_workspaces().get(id).is_some_and(|workspace| {
+                        // Drop MiniApp-owned workspaces recorded before they were excluded.
+                        !self.is_miniapp_owned_path(&workspace.root_path)
+                    })
+                })
                 .collect();
             if filtered_recent != data.recent_workspaces {
                 should_persist_cleaned_history = true;
@@ -2111,9 +2116,20 @@ impl WorkspaceService {
             }
         }
 
+        if self.is_miniapp_owned_path(path) {
+            options.add_to_recent = false;
+        }
+
         options
     }
 
+    /// MiniApp agent runs and customization drafts work inside directories the
+    /// MiniApp owns under `<userRoot>/data/miniapps/`. They are app storage, not
+    /// user projects, so they must stay out of recent workspace history.
+    fn is_miniapp_owned_path(&self, path: &Path) -> bool {
+        path.starts_with(self.path_manager.miniapps_dir())
+    }
+
     async fn discover_assistant_workspaces(
         &self,
     ) -> BitFunResult<Vec<AssistantWorkspaceDescriptor>> {
@@ -2579,6 +2595,41 @@ mod tests {
         );
     }
 
+    #[tokio::test]
+    async fn track_workspace_activity_keeps_miniapp_workspaces_out_of_recent_history() {
+        let env = TestEnvironment::new();
+        let service = build_test_workspace_service(env.path_manager.clone()).await;
+        let miniapp_workspace_root = env
+            .path_manager
+            .miniapp_dir("builtin-ppt-live")
+            .join("decks")
+            .join("deck-1785130332234");
+        std::fs::create_dir_all(&miniapp_workspace_root)
+            .expect("MiniApp workspace directory should be created");
+
+        let tracked = service
+            .track_workspace_activity(
+                miniapp_workspace_root.clone(),
+                WorkspaceCreateOptions::default(),
+                WorkspaceActivityMode::RefreshMetadata,
+            )
+            .await
+            .expect("MiniApp workspace tracking should succeed");
+
+        assert_eq!(
+            service
+                .get_workspace_by_path(&miniapp_workspace_root)
+                .await
+                .map(|workspace| workspace.id),
+            Some(tracked.id),
+            "MiniApp workspace should still be registered so its agent session can resolve it"
+        );
+        assert!(
+            service.get_recent_workspaces().await.is_empty(),
+            "MiniApp-owned workspaces should never enter recent workspace history"
+        );
+    }
+
     #[tokio::test]
     async fn touch_only_workspace_activity_preserves_worktree_metadata() {
         let env = TestEnvironment::new();
diff --git a/src/web-ui/src/shared/types/global-state.test.ts b/src/web-ui/src/shared/types/global-state.test.ts
index d607adaaa5..cf6cba43ea 100644
--- a/src/web-ui/src/shared/types/global-state.test.ts
+++ b/src/web-ui/src/shared/types/global-state.test.ts
@@ -99,6 +99,24 @@ describe('createGlobalStateAPI workspace startup bootstrap', () => {
     expect(globalApiMocks.initializeWorkspaceStartupState).toHaveBeenCalledTimes(1);
   });
 
+  it('keeps MiniApp-owned workspaces out of the recent list', async () => {
+    const snapshot = createWorkspaceSnapshot();
+    const miniAppWorkspace = {
+      ...snapshot.recentWorkspaces[0],
+      id: 'workspace-miniapp',
+      name: 'deck-1785130332234-eilik4',
+      rootPath:
+        '/Users/me/Library/Application Support/bitfun/data/miniapps/builtin-ppt-live/decks/deck-1785130332234-eilik4',
+    };
+    snapshot.recentWorkspaces = [...snapshot.recentWorkspaces, miniAppWorkspace];
+    bootstrapGlobals.__BITFUN_BOOTSTRAP_WORKSPACE_STARTUP_STATE__ = snapshot;
+
+    const api = createGlobalStateAPI();
+    const state = await api.initializeWorkspaceStartupState();
+
+    expect(state.recentWorkspaces.map(workspace => workspace.id)).toEqual(['workspace-1']);
+  });
+
   it('falls back to the startup command when the bootstrap snapshot is invalid', async () => {
     bootstrapGlobals.__BITFUN_BOOTSTRAP_WORKSPACE_STARTUP_STATE__ = { recentWorkspaces: [] };
     globalApiMocks.initializeWorkspaceStartupState.mockResolvedValue(createWorkspaceSnapshot());
diff --git a/src/web-ui/src/shared/types/global-state.ts b/src/web-ui/src/shared/types/global-state.ts
index 2774c94a70..d289d417da 100644
--- a/src/web-ui/src/shared/types/global-state.ts
+++ b/src/web-ui/src/shared/types/global-state.ts
@@ -11,6 +11,7 @@ import type {
   WorkspaceInfo as APIWorkspaceInfo,
 } from '@/infrastructure/api/service-api/GlobalAPI';
 import { createLogger } from '../utils/logger';
+import { normalizePath } from '../utils/pathUtils';
 
 const logger = createLogger('GlobalStateAPI');
 
@@ -151,6 +152,27 @@ export function isLinkedWorktreeWorkspace(workspace: WorkspaceInfo | null | unde
   return Boolean(workspace?.worktree && !workspace.worktree.isMain);
 }
 
+/** MiniApp storage root shared by every platform: `<userRoot>/data/miniapps/`. */
+const MINIAPP_DATA_PATH_SEGMENT = '/data/miniapps/';
+
+/**
+ * MiniApp agent runs work inside directories the MiniApp owns under the app data
+ * dir (`<userRoot>/data/miniapps/<appId>/...`, drafts included). They are MiniApp
+ * storage rather than user projects, so they never belong in workspace history.
+ */
+export function isMiniAppWorkspace(workspace: WorkspaceInfo | null | undefined): boolean {
+  const rootPath = workspace?.rootPath;
+  if (!rootPath) {
+    return false;
+  }
+  return normalizePath(rootPath).includes(MINIAPP_DATA_PATH_SEGMENT);
+}
+
+/** Temporary or app-owned workspaces that must not pollute the recent list. */
+function isExcludedFromRecentWorkspaces(workspace: WorkspaceInfo): boolean {
+  return isLinkedWorktreeWorkspace(workspace) || isMiniAppWorkspace(workspace);
+}
+
 
 export enum WorkspaceAction {
   Opened = 'opened',
@@ -395,7 +417,7 @@ function mapWorkspaceStartupStateSnapshot(
 ): WorkspaceStartupState {
   const recentWorkspaces = snapshot.recentWorkspaces
     .map(mapWorkspaceInfo)
-    .filter(ws => !isLinkedWorktreeWorkspace(ws));
+    .filter(ws => !isExcludedFromRecentWorkspaces(ws));
   return {
     cleanupRemovedCount: snapshot.cleanupRemovedCount,
     currentWorkspace: snapshot.currentWorkspace ? mapWorkspaceInfo(snapshot.currentWorkspace) : null,
@@ -569,7 +591,7 @@ export function createGlobalStateAPI(): GlobalStateAPI {
     async getRecentWorkspaces(): Promise<WorkspaceInfo[]> {
       const workspaces = (await globalAPI.getRecentWorkspaces())
         .map(mapWorkspaceInfo)
-        .filter(ws => !isLinkedWorktreeWorkspace(ws));
+        .filter(ws => !isExcludedFromRecentWorkspaces(ws));
       logger.debug('getRecentWorkspaces returned', summarizeWorkspacesForLog(workspaces));
       return workspaces;
     },