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After 30 minutes without a message the idle monitor closed stdin and expected the read loop to end. On a real, blocking stdin a read already in progress is not woken by closing the file, so the server lived on, the client's next message completed that read and the one after failed with 'read /dev/stdin: file already closed', which ended the connection mid-call. The idle shutdown is now off by default (a stdio server lives as long as its client; orphans are still caught by the parent check). CLAUDE_MNEMONIC_MCP_IDLE_TIMEOUT (a Go duration) turns it on, and then it cancels the loop's context so Run returns nil instead of closing stdin. Co-authored-by: Claude Sonnet 5.5 <[email protected]>