fix: clear high severity audit findings

[ya-nsh]

Summary

• Add an explicit patched vite@7.3.2 devDependency so Vitest resolves outside the high-severity vulnerable Vite range reported in High-severity CVEs via pnpm audit #2048.
• Update runtime server catalog entries for Hono/Fastify-related packages to current patched releases.
• Add root resolutions for remaining vulnerable transitive packages surfaced by pnpm audit (defu, fast-uri, kysely) and refresh the lockfile.

Related to #2048. This is broader than #2050 because it also clears the other high-severity audit findings present after refreshing dependencies.

Validation

• pnpm audit --audit-level=high → exits 0; 2 moderate vulnerabilities remain
• pnpm -r typecheck
• pnpm -r lint

Note: local pre-push pnpm run build:all reached @modelcontextprotocol/node's tsdown build and exited 134 in this environment; typecheck, lint, and the high-severity audit gate pass.

[changeset-bot]

⚠️ No Changeset found

Latest commit: c0d4cc4

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[pkg-pr-new]

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@modelcontextprotocol/client

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@modelcontextprotocol/fastify

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@modelcontextprotocol/hono

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@modelcontextprotocol/node

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commit: c0d4cc4

[ya-nsh]

Friendly review ping: this PR is ready for maintainer review when you get a chance. Current checks are green from my side.

Happy to adjust quickly if you want a different shape or narrower scope.

[morozow]

My copied comment with the same problem accent: #2050 (comment)