Problem
There is no direct way to confirm payment received for multiple invoices with one payment amount.
Solution
Go to one of the invoices that received the payment.
Create an adjustment invoice for that invoice.
Add a task to the adjustment invoice.
Set the task amount to match the total payment received.
Add a description explaining why the payment was made.
Make sure the task is non-membership and non-taxable.
Add a payment to the adjustment invoice.
Set the payment amount to match the task amount.
Send this adjustment invoice to your customer as payment confirmation.
Delete the task from the adjustment invoice after sending.
Delete the payment from the adjustment invoice after sending.