Hi Braedon
If your problem is related to the faulty service pack, then the outstanding payment is really a prepayment. You can match prepayments against invoices by applying them against each other in a manual check batch, so that the total of the check is $0.
If you are unable to select the prepayment, use this advice that I got from my friend Vickie Cegliastro:
"Steve, I don't know if it's the same issue as I've seen but you have to set the Maximum amount on the PP entry created by the cheque run (as it's set to zero), then you can match it to the invoice."
Or show this to your Adagio consultant and they will be able to help you.
Steve