How do I stop Quickbooks from auto checking invoices when entering a payment

Welcome to the Community, Mreinig.

I'm here to share information on your inquiry regarding stopping your QuickBooks Online (QBO) account from auto-checking invoices when entering a payment.

QBO is designed to streamline the payment-receiving process for businesses. When receiving a payment, all invoices that may be part of a payment are proposed and marked by the software. This feature saves businesses time and effort by eliminating the need for manually selecting all invoices required to pay. By automatically marking the invoices, QuickBooks ensures that businesses don't miss any outstanding payments, which helps with cash flow management.

Furthermore, when recording a payment on a specific invoice, I suggest going to the Invoice page and receiving the payment from there. 

Moreover, in recording invoice payments in QBO, you can refer to this article: Record invoice payments in QuickBooks Online.

You can track the assets you've received and other aspects of your business by running a financial report in your QBO. You can check this article to know how to generate one: Run Report in QuickBooks Online. 

Let us know if you have further questions or concerns about managing your invoices. We'll be more than happy to help you anytime. Have a good one!