Can I submit payroll without paying my employee through Quickbooks? I rather do an ACH through my bank account directly.

Yes, you can, @jonathan73. Let me help you record your employee's payment in QuickBooks Online(QBO).

If you pay your employees outside QuickBooks and haven't created a paycheck yet, you can change  the employee’s pay method to Paper check as you run payroll. Refer to the steps below:

1. Go to Payroll, then Employees.
2. Select Run payroll.
3. Choose the employee’s row.
4. Below the employee's name, click the dropdown to switch the pay method to Paper check.
5. Preview and submit your payroll.

On the other hand, if you already created a direct deposit paycheck but haven't sent it to Intuit and payment hasn't been processed yet, you can delete the direct deposit check and reissue it as a paper check. Here's how:

1. Go to Payroll, then Employees.
2. Select Run payroll.
3. Choose the employee’s row.
4. Below the employee's name, click the dropdown to switch the payment method to Paper check.
5. Submit your payroll.

You can also refer to this article for further details and to learn what steps to take if the direct deposit has already been sent to Intuit in the Scenario 3 section: Change a direct deposit paycheck to a paper paycheck.

Additionally, once you switch your employee's payment method to a paper check, you can check this article for guidance on printing paychecks or pay stubs: Print or reprint paychecks and pay stubs.

Let us know if you have other questions about paychecks. I'll be around to help. Have a nice day.