The bearing are undergoing more damage right now from sitting in the watery sludge than they will once it's replaced with 99% fresh oil. The contaminates remaining after you fill, run for 30 minutes will quickly evaporate and get pulled out via the PCV system. Of course you will be changing the oil after the first 30 minutes of running or so as well which will remove any other contaminates you need to be concerned with (except for heavy particulate from scrapers, sand paper, lapping compound, etc.).
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