How to mark an invoice as paid when the funds went straight to the owners personal account?

Welcome to the Community, @Jmullins. I'd be happy to help on how to mark your invoice as paid.

Yes, you can still record the payment by using the standard Receive Payment process to indicate that the invoice has been paid and then recording it as Undeposited Funds (UF) or Payments to Deposit account. This is because the UF account functions as a temporary holding account until the payment is processed and cleared by your bank.

Here's how to do it:

1. In the left menu panel, click + New.
2. Choose the Receive payment.
3. From the Customer dropdown, select the name of the customer.
4. Under the Payment Date, enter the exact date your customer paid the invoice.
5. In the dropdown, choose the Payment Method.
6. In the Deposit to dropdown, select the Payments to deposit account. 
7. In the Outstanding Transactions section, tick the checkbox for the invoice you're recording the payment for.
8. Enter the Reference no. and Memo. (Only if needed)
9. Hit Save and Close.

Furthermore, as the funds were deposited directly into your personal checking account, it is essential to seek advice from your accountant regarding the necessary actions to maintain accurate documentation for your LLC landscaping business.

In case you still need to look for an accountant, we offer a ProAdvisor service that allows you to connect with professionals. Just input your zip code and explore the choices on the Find My Accountant website. Many of the profiles include a complimentary consultation to provide you with valuable advice

For future reference in customizing your sales forms, refer to this article: Customize invoices, estimates, and sales receipts in QuickBooks Online.

You are welcome to post a reply if you have more questions about recording invoice payments in QBO.