I have checked the records and seen no open issue similar to yours. Also, bank sync to QuickBooks (QB) will not affect your bank transactions in receiving invoice payments because it's different. QB is a read-only app which means that all the bank transactions will base on what is posted in your bank.
As of now, I suggest you contact our Customer Phone Care Team so that they can verify further if there is a bank issue or a connection issue from QuickBooks Online. Here's how to reach out to them:
In your QuickBooks Enterprise company, go to the Help button and click on the Contact Us button.