Managing payroll has never been easier before the advent of QuickBooks Desktop software, has it? The way QuickBooks has simplified tedious payroll operations is incredible for all business payroll managers who have hands-on QuickBooks. Though the software is smooth and user-friendly, users can still encounter QuickBooks payroll check-matching issues while synchronizing transactions within QuickBooks. 

This post will discuss everything about this error, including its prominent reasons and effective troubleshooting ways. Continue reading to fix this issue as soon as possible.

Understanding QuickBooks Payroll Transaction Issues

There are times when your QuickBooks payroll check transactions not matching, bringing you issues related to bank reconciliation, data entries, or discrepancies between QuickBooks and your bank statements.

Why is My QuickBooks Payroll Check Transactions Not Matching?

Now, why it happens is explained below. Have a look at the possible reasons for facing this payroll issue:

  1. One of the prominent reasons is the damaged payroll folder containing payroll tax table files.

  2. Registration issues of your QuickBooks Desktop payroll product.

  3. Incorrect billing information within QuickBooks.

  4. If you’re running an outdated QuickBooks Desktop payroll version, you won’t be able to accurately match payroll check transactions.

  5. Make sure the Employer Identification Number (EIN) is valid and correct within your QuickBooks Desktop.

  6. Another notable reason for facing QuickBooks payroll check transactions not matching is the damaged QuickBooks company data file.

Also Read: Upgrade QuickBooks Desktop 2025

How Can I Troubleshoot QuickBooks Paycheck Not Matching Issue?

Look at the below troubleshooting methods to hassle-freely fix the QuickBooks paycheck not matching issue. We suggest you carefully follow the prompts below: 

Way 1 – Run an Updated QuickBooks Desktop Payroll Program 

  1. You must initiate this method by first closing all the running software programs and their related open tabs on your Windows system.

  2. Done? Right after this, continue launching your current QuickBooks Desktop version as an admin and directly move to the top menu bar to click the Help button. 

  3. Now, you need to click the tab for Update QuickBooks Desktop from the drop-down list of the Help tab. 

  4. By this, you will get an Overview tab on your screen. Now, click the Update Now alternative, and then continue to click the Get Updates button.

  5. Following this, the update process will initiate, which will further ask you to wait for a few moments. Wait accordingly, and move to the next step. 

  6. Lastly, choose the OK tab and confirm the installation of the most recent QuickBooks payroll program updates. 

Way 2 – Correct the EIN (Employee Identification Number)

  1. Initially, you must log in to your system as an admin and then open QuickBooks to further click the Choose Payroll option. 

  2. Next, you must click the Use My Existing Payrolls Service tab. Following this, a new window for Account Maintenance will display on your desktop screen. 

  3. Now, in this step, you must select the Add file option, and then choose the Radio button, having Add EIN Number option. 

  4. Continue to this step, and then click the Next alternative. Right after this, you must verify the EIN and related information within your QuickBooks company file. 

  5. Finally, after successfully completing the steps above, you must continue to open your QuickBooks Desktop program and retry matching your payroll check transactions. 

Way 3 – Run QuickBooks File Doctor to Fix Company File Issues

  1. You must first install the latest QuickBooks Tool Hub on your computer by visiting the official Intuit website. 

  2. Secondly, navigate directly to the Company File Issues tab within the QuickBooks Tool Hub. 

  3. Now, click the tool to run, and this will ask you to upload the company file, triggering the QuickBooks payroll check matching issues. Here, you must provide the admin credentials and then continue to upload the file. 

  4. Next, the tool will start fixing the issues, which will take a few minutes. Once done, now close all the tabs, restart your computer, and start using the QuickBooks payroll again to match check transactions. 

Know More: QuickBooks Tool Hub File Doctor

In a Nutshell!

Hopefully, this quick post has helped you learn about QuickBooks payroll check matching issues. While facing such issues, continue to perform the above methods or call us at +1-877-752-9120.