record payment for invoice thats past 90 days in Quick Books self employed

Hi, @mh01. I'll share some information on how you can record invoice payments in QuickBooks Self-Employed (QBSE).

In QBSE, we don't have a direct way to record invoice payment and link it to the invoice. The Invoice page is for recording purposes only. We can mark the payment as paid by clicking the Mark as paid button. 

If you connect your bank to QBSE, you can categorize your invoice transaction as business income. If not, we can manually enter the payments through the Transactions tab and set the paid date. I'll guide you on how:
 

1. Go to the Transaction menu and select Add Transaction.
2. Enter the amount and a description.
3. Select a category to organize your transaction. Learn more about categories.
4. If you have a receipt, you can drag and drop it onto the form.
   
   
    
5. When you’re done, click Save.

For more information about the process depending on how you access Self-Employed, check out this link: Manually add transactions in QuickBooks Self-Employed.

Moreover, it's important to categorize your transactions so QuickBooks puts them in the correct line of your Schedule C. 

Please keep me posted if you have further questions about recording invoice payments in QuickBooks. Simply leave your reply below and I'll surely get back.