What's the problem with creating a zero dollar check? Because that is the answer. You don't have to actually PRINT the check, though, just un-tick the "Print Check" box and then give it a fake number like 999999 (you can use the same check number over and over). It won't appear in the list of outstanding checks.

As for the vendors with actual balances that you want to correct, like I said before, just enter a credit note for the difference. If it's one invoice that needs correcting, you can apply the credit note to the invoice and you are done. If it's multiple invoices that need correcting, then after posting the credit note, you can create a zero dollar check to match up the amounts.

Steve