Taggin transaction related to paying a bill

jpayneiv

When I make a payment through the "Make a payment to vendor" the transaction in the payment account (bank account) does not contain a Tag back to my business. When i add the tag to that transaction Quick complains saying "This payment has been used to pay a bill. You have changed it so that it will no longer apply to them".

What is the proper way to do the accounting? I see without the tag some reports operate correctly and others double count the transaction (one from the bank account and the other from the Vendor Invoicing account… If I leave off the tag then I miss the transaction when I run reports requiring cash basis accounting vs accrual.