I paid my 940 FUTA tax thru EFTPS but the system still shows it is outstanding under tasks?

Paying it through eftps does not record the payment in QB. You still have to Pay Liabilities inside QB to record it. 

I paid my Payroll 941/940 taxes on the phone. How do I show it paid in QB's

Good day, JC4457.

You can record the tax payment through the Payroll Tax Center page in QuickBooks Online (QBO).

To do so, follow these steps:

1. Sign in to QBO.
2. From the Taxes menu, choose the Payroll Tax tab.
3. Click on the Pay Taxes button.
4. On the Pay Taxes page, click on Record payment for the tax you want to pay.
5. For the Payment Date, select Other and enter the actual date the payment was made.
6. Enter the check number.
7. Once done, click on Record. 

See the Recording prior tax payments article for further guidance.

I'm also sharing this link that will help you in the future: Year-end Checklist for QuickBooks Online Payroll.

Keep me posted if you have any follow-ups or other concerns. I'm here to help. Wishing you the best.

Hi Jane

How would I enter a 941 payment made over the phone into QB desktop?

Thanks!

I've got your back, @jungers.

The best way to record payroll tax payments you've made outside QuickBooks is by entering them as historical tax payments in QuickBooks Desktop. Here's how:

1. Go to the Help menu and choose About QuickBooks.
2. Press Ctrl + Alt + Y to open the Setup YTD Amounts window.
3. Click Next until you reach the Enter prior payments section.
4. In the Enter Prior Payments window, select Create Payment to enter all prior payroll tax and non-tax payroll liability payments you've made.
5. Enter the Payment Date and For Period Ending date accordingly.
6. In the Taxes and Liabilities field, choose the payroll tax item that you've already paid, then enter the amount.
7. Select test the Accounts Affected... button, then select the appropriate option on how you want the payment to affect your Chart of Accounts.
8. Click Next Payment (if you've another payment that needs to be recorded), then select Finish to complete the process.

I'm adding this article for more guidance: Enter historical tax payments in Desktop payroll.

You might also want to run and customize payroll reports in QuickBooks Desktop. This can help you manage payroll and keep track of employee expenses.

Should you need further assistance recording tax payments in QuickBooks Desktop, you can leave a comment below. I'll be sure to get back to you, @jungers.