[Bug] Session usage percentage mismatch between Claude Code and Claude app

Bug Description
the session usage shows 95 % in claude code but the settings in the claude app show usage at 77% so claude code stops working when i have available usage

Environment Info

• Platform: linux
• Terminal: gnome-terminal
• Version: 2.1.14
• Feedback ID: 138755a5-d359-4317-8f7f-37feabcedf34

Errors

[{"error":"Error: Plugin MCP server error - mcp-config-invalid: MCP server greptile invalid: Missing environment variables: GREPTILE_API_KEY\n    at SHA (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4560:22120)\n    at process.processTicksAndRejections (node:internal/process/task_queues:105:5)\n    at async uS0.<anonymous> (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5445:709)\n    at async uS0.parseAsync (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4594:4156)\n    at async eT7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5478:1640)\n    at async rT7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5422:1647)\n    at async BP7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5479:5943)","timestamp":"2026-01-21T09:17:12.340Z"},{"error":"Error: Plugin MCP server error - mcp-config-invalid: MCP server github invalid: Missing environment variables: GITHUB_PERSONAL_ACCESS_TOKEN\n    at SHA (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4560:22120)\n    at process.processTicksAndRejections (node:internal/process/task_queues:105:5)\n    at async uS0.<anonymous> (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5445:709)\n    at async uS0.parseAsync (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4594:4156)\n    at async eT7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5478:1640)\n    at async rT7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5422:1647)\n    at async BP7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:5479:5943)","timestamp":"2026-01-21T09:17:12.340Z"},{"error":"Error: ENOENT: no such file or directory, scandir '/etc/claude-code/.claude/skills'\n    at Module.readdirSync (node:fs:1583:26)\n    at file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:9:1766\n    at jI (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:8:34380)\n    at Object.readdirSync (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:9:1736)\n    at FZ1 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:1523:369)\n    at file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:1523:4274\n    at B (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:8:6808)\n    at lz7 (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4154:4354)\n    at file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4154:6941\n    at B (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:8:6808)","timestamp":"2026-01-21T09:17:12.371Z"},{"error":"Error: Plugin MCP server error - mcp-config-invalid: MCP server greptile invalid: Missing environment variables: GREPTILE_API_KEY\n    at SHA (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4560:22120)\n    at async V (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:3523:14951)","timestamp":"2026-01-21T09:17:13.361Z"},{"error":"Error: Plugin MCP server error - mcp-config-invalid: MCP server github invalid: Missing environment variables: GITHUB_PERSONAL_ACCESS_TOKEN\n    at SHA (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4560:22120)\n    at async V (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:3523:14951)","timestamp":"2026-01-21T09:17:13.361Z"},{"error":"Error: Plugin MCP server error - mcp-config-invalid: MCP server greptile invalid: Missing environment variables: GREPTILE_API_KEY\n    at SHA (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:4560:22120)\n    at async K (file:///home/buckstrdr/.nvm/versions/node/v22.20.0/lib/node_modules/@anthropic-ai/claude-code/cli.js:3523:15467)","…

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