Item Class Update is blanking EFF values due to which Item Product Rules recalculates certain values

Summary: We are observing that when user is updating Item Class certain custom EFFs are blanked out after updating Item Class after save due to which some Item Product rules get triggered and but when we re-query updated Item record EFF values are populated but the the calculated values are wrong. I was wondering if this is expected behavior and what is the best practices if Item Class are to be updated. I understand we can run Analyze Rule Set Impact but how to avoid EFFs values not getting blank and Product rules getting triggered( see attached screen shots)

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