Introduce a type-safe, centralized query key system following TanStack
Query best practices:

- Add src/lib/queryKeys.ts with hierarchical factory functions
- Use `as const` assertions for full type inference
- Group keys by feature (apps, chats, versions, etc.)
- Support prefix-based invalidation via parent keys

Update all 30+ hooks and components to use the new queryKeys:
- Replace inline string arrays with factory calls
- Replace scattered exports (CHATS_QUERY_KEY, TOKEN_COUNT_QUERY_KEY,
etc.)
- Consistent pattern: queryKeys.<feature>.<operation>(params)

Benefits:
- Single source of truth for all query keys
- Full autocomplete/IntelliSense support
- Type-safe invalidation (catches typos at compile time)
- Easier refactoring and key discovery

<!-- This is an auto-generated description by cubic. -->
---
## Summary by cubic
Centralized React Query keys behind a typed queryKeys factory and
updated 30+ hooks/components to use it. This improves type-safety,
enables autocomplete, and makes invalidation and refactors simpler.

- **Refactors**
- Added src/lib/queryKeys.ts with hierarchical factory functions (as
const) grouped by feature.
- Replaced inline arrays and scattered constants (e.g., CHATS_QUERY_KEY,
TOKEN_COUNT_QUERY_KEY, APP_THEME_QUERY_KEY, SUPABASE_QUERY_KEYS).
- Standardized invalidate/remove calls to use parent keys (e.g.,
queryKeys.chats.all, queryKeys.versions.list({ appId })).
- Structured MCP keys (mcp.toolsByServer.all and
mcp.toolsByServer.list({ serverIds })) and updated Supabase branches to
include organizationSlug.
- No behavior changes; safer invalidation and consistent keys across the
app.

- **Migration**
- Use queryKeys.<feature>.<operation>(params object) for all queryKey
definitions.
- Invalidate broadly via parent keys when needed (e.g.,
queryKeys.chats.all).
- Update Supabase branches calls to pass organizationSlug:
queryKeys.supabase.branches({ projectId, organizationSlug }).
  - Do not add or export per-hook key constants; rely on queryKeys.

<sup>Written for commit 2b80e408f077b8ea3141369ca21f62e514852cfd.
Summary will update on new commits.</sup>

<!-- End of auto-generated description by cubic. -->

<!-- CURSOR_SUMMARY -->
---

> [!NOTE]
> Introduces a centralized, typed React Query key factory and applies it
across the app for consistency and safer invalidation.
> 
> - Adds `src/lib/queryKeys.ts` with hierarchical, `as const` key
factories (e.g., `queryKeys.apps.detail`, `queryKeys.versions.list`)
> - Refactors 30+ hooks/components to use factory keys in
`useQuery`/`useMutation` and `invalidateQueries`/`removeQueries`
> - Replaces scattered constants (e.g., `CHATS_QUERY_KEY`,
`TOKEN_COUNT_QUERY_KEY`, `APP_THEME_QUERY_KEY`, Supabase/MCP keys) with
`queryKeys`
> - Updates IPC-driven UI pieces (`AppUpgrades`, `CapacitorControls`,
`ModelPicker`, `ChatInput`, preview panels, Neon, MCP, Supabase, Vercel,
etc.) to the new keys
> - Documentation: `AGENTS.md` adds an Architecture section with usage
guidelines and changes format script to `npm run fmt`
> 
> <sup>Written by [Cursor
Bugbot](https://cursor.com/dashboard?tab=bugbot) for commit
2b80e408f077b8ea3141369ca21f62e514852cfd. This will update automatically
on new commits. Configure
[here](https://cursor.com/dashboard?tab=bugbot).</sup>
<!-- /CURSOR_SUMMARY -->

---------
Co-authored-by: Claude <noreply@anthropic.com>