We are having the same issue.   2 employees came back from Terminated status to Active.

Payroll works proper, Direct Deposit goes into the bank, employee gets paid.

NO record shows up in the Bank Reg with the other 17 Direct Deposits. Nothing to Match when the Bank sync happens.   I can search under each employee and Find the checks, but NOT the bank.

I looked into the Fix listed, ALL employees are being funded from the ONLY Bank account we have added.