MCP Tools Appearing Duplicated in Claude Code Interface

Status Fixed / completed
Maintainer reply ✓ Yes — ashwin-ant
Activity 6 comments · opened Jun 27, 2025 · closed Jul 2, 2025
💡 Likely answer: A maintainer (ashwin-ant, collaborator) responded on this thread — see the highlighted reply below.

Bug Report

All MCP (Model Context Protocol) tools are appearing duplicated in the Claude Code tool selection interface.

Environment

  • Platform: Linux (WSL2)
  • Claude Code: Latest version
  • MCP Server: zen-mcp-server (affects all MCP servers)

Issue

Every MCP tool shows up multiple times in the tool selection interface, creating confusion when selecting tools.

Expected Behavior

Each MCP tool should appear only once.

Actual Behavior

All MCP tools are displayed multiple times.

Reproduction

  1. Install any MCP server
  2. Open Claude Code
  3. View MCP tool selection
  4. Notice duplicate tool entries

Visual Evidence

Screenshot attached showing the duplication issue.

This affects all MCP server integrations in Claude Code.

View original on GitHub ↗

6 Comments

isCopyman · 1 year ago
RaiAnsar · 1 year ago

Yup, having the same issue for past few days thought I messed it up somehow with my custom MCP's.....

CaptainCrouton89 · 1 year ago

Same issue, regardless of where it's installed from.

ashwin-ant collaborator · 1 year ago

This will be fixed in the next version (1.0.41)

ashwin-ant collaborator · 1 year ago

This is fixed now!

github-actions[bot] · 1 year ago

This issue has been automatically locked since it was closed and has not had any activity for 7 days. If you're experiencing a similar issue, please file a new issue and reference this one if it's relevant.