Here's what the transactions can look like, e.g—

Simplest form - Prepayment, not applied to any invoices:

Cr. Checking
Dr. Accounts Payable

Payment on one invoice, remaining excess is a prepayment:

Cr. Checking
Dr. Accounts Payable (amount applied to one invoice)
Dr. Accounts Payable (remaining prepayment amount)

If you applied to multiple invoices with remaining prepayment:

Cr. Checking
Dr. Accounts Payable (amount applied to 1st invoice)
Dr. Accounts Payable (amount applied to 2nd invoice)
Dr. Accounts Payable (amount applied to nth invoice)
Dr. Accounts Payable (remaining prepayment amount)

Eventually, each AP split will be for a certain invoice and the Vendor Report detailed links will show this info.

Regards,
Adrien

On 8/5/20 10:22 AM, Tim Quinn wrote:

I did see ‘Edit payment.’ When I tried that, Gnucash did not change the payment 
amount as shown in the General Journal, but rather it created a new line for 
the difference with account “Imbalance-USD.” I could change that to match the 
other lines representing invoices to which I had applied part of the payment, 
but the customer report for that customer did not reflect the adjustment.

I’ve gone back and tried it again using the backup of the data file, and I now 
see that if I changed the account for the new “Imbalance” line to the checking 
account (where the original check was deposited) then things do seem to turn 
out correctly, including the customer report for the relevant customer. And 
that seems to make sense to me now that I think about it.

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