The equivalent in the MR world is to recreate the datamart which essentially involves removing the integration, deleting the DM database and then re-adding and re-enabling.
Before going that route, have you tried running the balance sheet with Account Level detail and then drilling in to the Net Income line for that company? You could then run the Trial Balance in GP for the same account range and date and compare the accounts to see for sure if it's a data issue and which accounts are causing the issue to determine for sure if everything posted correctly.