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repo-updater: Use s.Logger where appropriate

Administrator requested to merge syncer-logger into sync_single_external_service

Created by: ryanslade

The syncer has it's own logger with should be used when logging from within any methods on the syncer struct.

Also updated a couple of places where we were using the correct logger but not performing a nil check.

Stacked on: #13742
Closes: #13718

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