fix(watch): purge embeddings before nodes to stop FK crash in rebuildFile #4033

Job	Run time
Rust compile check	52s
Lint	7m 37s
Verify dynamic imports	9s
Native host build (macos-latest)	2m 32s
Security audit	7m 27s
Native host build (ubuntu-latest)	3m 21s
TypeScript type check	7m 48s
Native host build (windows-latest)	5m 24s
Pre-publish benchmark gate	12m 42s
Test Node 22 (macos-latest)	12m 26s
Test Node 22 (ubuntu-latest)	9m 25s
Engine parity (ubuntu-latest)	7m 33s
Engine parity (windows-latest)	11m 40s
Test Node 22 (windows-latest)	14m 16s
Engine parity (macos-latest)	8m 25s
CI Testing Pipeline	2s
	1h 51m 39s

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