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fix: retain safe native dependency refresh diagnostics #521

Job	Run time
test	2m 11s
runtime-images	45s
Candidate core (ubuntu-latest)	4m 47s
Candidate core (macos-latest)	8m 55s
docker-e2e	4m 47s
linux-process-lifetime	22s
secret-scan	12s
Runtime state models	1m 29s
	23m 28s