test(e2e): make protocol:timeout:max-total wait for the SSE round trip

[Singmin]

protocol:timeout:max-total turns on fake timers, starts the call, and immediately advances the clock in 200ms steps. Over SSE the tools/call POST is real HTTP, so the clock can cross the 500ms per-request timeout before the request reaches the server. The call then rejects with Request timed out and the test fails on expected 0 to be greater than or equal to 3; maxTotalTimeout is never exercised.

Fix

Wait for the server to enter the tool handler before advancing the clock, then wait for each progress notification to reach the client before the next step. Both waits are plain promise waits, so the SSE stream gets the real time it needs while the fake clock stays put and the maxTotalTimeout budget under test is untouched. The loop also stops as soon as the call settles, so a rejection that lands before the next progress notification cannot hang the test.

Tests

• Reproduced locally by delaying the POST dispatch in the SSE host by 600ms (temporary patch, not part of this PR). The old test fails 2/2 with expected 0 to be greater than or equal to 3; this one passes 2/2.
• 10 consecutive runs of both SSE cells: all pass.
• All 12 transport/spec cells of protocol:timeout:max-total: pass.
• Full scenarios/protocol.test.ts: 358 passed, 50 expected failures.
• pnpm --filter @modelcontextprotocol/test-e2e typecheck and lint: pass.

Fixes #3045

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