Fix source name persistence (#391)

[RhysSullivan]

Summary

Partial fix for #391 — three of the four reported problems:

• Custom MCP source names get clobbered on refresh. refreshSource was preferring the MCP server's manifest name over the user's saved name (manifest.server?.name ?? existing?.name ?? namespace). Flipped to existing?.name ?? manifest.server?.name ?? namespace so user renames survive a refresh.
• Editing a source name doesn't update the sidebar/home page until full reload. updateSource was writing to plugin storage but never updating the executor's in-memory source row. Added a ctx.core.sources.update({ id, scope, name, url }) call inside the same ctx.transaction as the storage write so both stay in sync atomically.
• Long source names get truncated in the cloud sidebar with no way to read them. Added title={s.name} so the full name shows in a hover tooltip. (Resizable sidebar intentionally out of scope here.)

Still open from #391 (separate PR): secret label editing — there's no update handler in the secrets API today.

Test plan

• bun run --cwd packages/plugins/mcp typecheck
• bun run --cwd apps/cloud typecheck
• bun run --cwd packages/plugins/mcp test — 46/46 pass
• Manual: rename an MCP source, verify the sidebar updates without reload
• Manual: refresh a renamed source, verify the custom name is preserved
• Manual: hover a long source name in the sidebar, verify tooltip shows full name

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commit: 14c48cf