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Level 4

payroll auto payroll is blocked, how to run manually?

hi, for the first time i just got a "we can't run auto payroll" notice from my quickbooks. a screenshot is attached...

can someone please tell me what i need to do to manually run payroll?

thank you for your help!  -todd

11 Comments 11
QuickBooks Team

payroll auto payroll is blocked, how to run manually?

Hi there, Todd. I'd be glad to help you pay your employees right away.


What payroll service are you using? You can pause auto payroll for a pay period by paying your employee manually. Auto payroll will start again on your next pay run.


Here's how:

  1. Select Payroll, then Run Payroll.
  2. Select Pay manually this period on the employees you wish to pay manually.
  3. Enter the date, pay schedule, and edit any pay items for this payroll.
  4. Select Preview and then Submit.


If you need to make changes to your employees, refer to this link for the detailed steps: Manage your Auto Payroll.


If you're using a full-service payroll and don't see the option to run it manually, I'd recommend reaching out to our Payroll Support team. 


  1. Click the (?) Help icon in the upper right-hand corner of the Dashboard.
  2. Select Talk to a Human.
  3. Enter a short description of your concern and press Enter.
  4. Click I still need a human.
  5. Select Contact Us to connect with our live support.
  6. Choose Get a callback.


You can check out this article to learn about our supports availability hours: Contact Payroll Support.


Keep me posted if you need further assistance working with your other payroll tasks. Stay safe and have a great rest of the day.

QuickBooks Team

payroll auto payroll is blocked, how to run manually?

Hi @toddlerne, 

Hope you’re doing great. I wanted to see how everything is going about running your payroll manually. Was it resolved? Do you need any additional help or clarification? If you do, just let me know. I’d be happy to help you at anytime.

Looking forward to your reply. Have a pleasant day ahead!

Level 1

payroll auto payroll is blocked, how to run manually?

Can you explain why that would happen ? 

Level 1

payroll auto payroll is blocked, how to run manually?

I have been on the phone with Intuit twice with no clear answer as to the cause of my Auto Payroll being blocked.  I was advised on April 5 to run the payroll manually and this would unblock the Auto Payroll.


Today, I called to see if I could get a better answer from maybe a different Intuit representative.  This time, I was told to DELETE my manual payroll and this would create the Auto Payroll automatically and I performed the DELETE of the paychecks I had set up to run manually.  Of course, nothing changed, the Auto Payroll was still blocked.  I was escalated to another Inuit representative who told me to DELETE my payroll after it has run!


I asked this manager to repeat those instructions and she did so three times and every time I responded, but if I delete the manual payroll, my employer reports will be incorrect and the W-2s and other paychecks associated with the deletion will be underreported.  The manager said "yes, I understand and I am sorry for the inconvenience".


Does anyone have a clear answer to this frustrating issue?  I was told this is an Intuit problem, the engineers are aware and my questions are so many:  Why was the employer not notified?  What is the true resolution with deleting a payroll that has already run?  Intuit representatives seem lost with issues of compliance? 


payroll auto payroll is blocked, how to run manually?

This is not the kind of experience we want you to have, @CSS777.


To further check why the Auto Payroll was blocked and verify if there's any other option aside from deleting the payroll run, I suggest reaching out to our Customer Support team. You can do it by going to the Help icon at the top right of the account. 


Follow the steps below: 


  1. Go to the Help icon to connect to a live support agent.
  2. Click on the Contact Us button and provide some details about this concern.
  3. Provide us with some information about your concern in the What can we help you with? box and click on Continue.
  4. You'll now be provided options on how to connect to our Customer Support.


Check this article for more information about the different types of support we offer and their availability: QuickBooks Online Support.


Here's how you can make a one-time change to your employee's payroll info, make a permanent change to your employee’s payroll info, pay your employee manually, and turn off Auto Payroll: Manage your Auto Payroll.


I'm always here if you need more help with your account. Keep safe, and have a great rest of the day!

Level 1

payroll auto payroll is blocked, how to run manually?

Maybe an automated robot answered this post since I have already reached out 2 times to a person and both times have not received a satisfactory resolution to this problem.

Level 1

payroll auto payroll is blocked, how to run manually?

My auto payroll is also blocked.

Did you ever find out why?


QuickBooks Team

payroll auto payroll is blocked, how to run manually?

Hello Rick,


I understand the importance of knowing why your payroll service is blocked. I can see how difficult it would be to run payroll for your employees. To turn around this experience, I'll help by pointing you to the right support so we can fix this issue.


Since this requires private information, I recommend contacting our Payroll Support Team. They have the tools that can help investigate this issue further in a secure manner. Rest assured that we're here to assist you all the way.


Here's how:


  1. Go to the Help icon and choose Search.
  2. Click the Contact Us button and enter your concern.
  3. Press Continue.


See this list of payroll reports you can run if you'll want to view useful information about your business and employees: Run payroll reports in QuickBooks Online Payroll.


You can also check out this guide to save it with its current customization settings: Memorize reports in QuickBooks Online.


Visit me here again in the Community to keep me posted on your progress regarding this payroll issue. I'm determined to help you succeed. Stay safe. 

Level 2

payroll auto payroll is blocked, how to run manually?

I have the same issue for months now. 2nd level tech do nothing. They close the case saying it is fixed. But it is not. I am forced to run manually. 
This is the fifth time I spend almose one hour on the phone and more on follow up emails with Mable and others. 

Payroll subscription is not the issue. It is valid and renewing automatically - paid for for months.

QuickBooks Team

payroll auto payroll is blocked, how to run manually?

I appreciate your joining this thread, @Wasapi. I'll ensure that the information I'll provide will help you feel at ease.


Currently, there's an ongoing investigation into this issue (INV-88628). Our engineers have looked into the issue of auto payroll being blocked with no action items. Rest assured our product team is doing its best to fix this as soon as possible.


We have opened communication with them and are working to resolve this issue. At the moment, we don't have an expected timeline for when this issue will be resolved. So I recommend contacting our team to add you as one of the affected and email you once updates are available. Follow the steps below to contact support:


  1. Sign in to your QuickBooks Online, then click the Help (?) icon.
  2. Choose either tab to get started: Assistant or Talk to human.
  3. Select Contact Us.
  4. Click Start a chat with a support expert or Get a callback from the next available expert.


After the investigation is resolved, feel free to check out this article about what you can do next: Run payroll reports.


I'm grateful that you raise your concern here. Never hesitate to come back if you have additional questions or updates about the investigation on your end. I'll be happy to lend a hand. Take care, and have a good day.

Level 2

payroll auto payroll is blocked, how to run manually?


This is STILL an issue and remain unresolved. Auto payroll is still blocked. Calling to support does not help. They don’t understand the issue. 

The problem SEEMS resolved after you run them manually (pay by check). Auto payroll is accepted. But only temporarily… it gets disabled again a few days later. Calling in support again and they just make you create checks again. Looping here!!

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