AP Invoice paid to wrong Supplier

Hello,

Situation:

We have a vendor invoice incorrectly paid to a wrong supplier.

Vendor A was paid for Invoice 1 = $480.00 and Invoice 2 = $974.96. Total ACH Payment = $1,454.96

Vendor B was paid Invoice 2 = $974.96

Vendor A refunded the $974.96 incorrect payment and money was received in our bank.

How would you resolve this issue ?

Should AP void the payment to Vendor A and cancel Invoice 2?

If we void this payment it voids $1,454.96. We then would need to create a payment for the $480 since it was already paid. 

By creating the payment of $480, would that create a payment file that gets sent to the bank on our next payment run ? Or will it not appear on the next payment run because we would have applied the banking amount and it would be a cleared payment.  We are trying to avoid paying Vendor A an extra $480.