Codex harness does not load Codex-style instructions or MCP servers from all workspace roots
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Description
Testing #331067
1. Create a multi-root workspace containing `alpha` and `beta`.
2. In each root, add unique markers to:
- `AGENTS.md`
- `.codex/config.toml` MCP server
3. Open the workspace with `alpha` listed first.
4. Start a Codex session with:
> Without reading files or using shell commands, report the loaded instruction marker and call the available Codex MCP identity tool for each workspace root. Report `NOT LOADED` for anything unavailable.
5. Notice that alpha’s instruction and MCP server are available, while beta’s are missing.
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