Hello, highlandingproje.
The invoicing feature in QuickBooks Self-Employed (QBSE) is for tracking purposes only. The invoice are automatically marked as paid once you receive the customer payments. They won't affect your income taxes until you've recorded their payments in the Transactions page.
For additional reference, here’ a great resource that you can check: Manually add transactions in QuickBooks Self-Employed.
Also, to make sure that your transactions are under the correct account, you can easily categorize them in QuickBooks. For the detailed steps, please visit this page: Categorize transactions in QuickBooks Self-Employed.
Please let me know if you have any other questions about recording your invoice transactions. Just let me know in the Reply section below. Keep safe and enjoy the rest of the day!