[BUG] MCP server tools unavailable after /clear in VS Code extension

Preflight Checklist

• [x] I have searched existing issues and this hasn't been reported yet
• [x] This is a single bug report (please file separate reports for different bugs)
• [x] I am using the latest version of Claude Code

What's Wrong?

After running /clear in the VS Code extension, MCP server tools (plugins, custom servers) stop being discoverable. Sub-agents spawned after /clear report "0 tool uses" and cannot invoke any MCP tools. ToolSearch calls for MCP tool names return nothing. The session must be fully restarted (new session, not /clear) to restore MCP tool availability.

What Should Happen?

/clear should reset conversation context without dropping the MCP tool registry. MCP tools should remain available and callable after clearing the conversation.

Error Messages/Logs

No explicit error — tools silently become undiscoverable. Sub-agents report completing with "0 tool uses" and the main agent notes "The sudocode MCP tools aren't surfacing through ToolSearch."

Steps to Reproduce

1. Open Claude Code in the VS Code extension with one or more MCP servers configured (e.g. a plugin server)
2. Confirm MCP tools work — invoke any MCP tool successfully
3. Run /clear
4. Attempt to use the same MCP tools (directly or via sub-agents)
5. Observe: tools are not found, sub-agents complete with 0 tool uses, ToolSearch returns no matches for MCP tool names

Claude Model

Opus

Is this a regression?

I don't know

Last Working Version

_No response_

Claude Code Version

2.1.132

Platform

AWS Bedrock

Operating System

macOS

Terminal/Shell

Other

Additional Information

_No response_