Welcome to the Community. I can provide some clarification about the updates in QuickBooks Desktop.
The Automatic Update option is designed to ensure the software is up-to-date and has the latest features and fixes. However, the payroll updates aren't part of it because its only applicable for users with an active payroll subscription.
Tax table updates help ensure the program follows all current laws that affect payroll calculations. We recommend keeping QuickBooks and tax table updated at all times to avoid any unexpected behavior.
If your recent payroll is already provided to your employees, the adjustments should reflect to the next pay date. It should include the missing taxes.
I can see how beneficial having a button for auto-update and being warned to download the recent tax table during payroll. We always update the features in QuickBooks, and this preference might be added in the future.
As we assess this, I suggest you visit our New Features section (click the Help tab at the top, then select New Features) to stay updated with all the changes that are being made.
Also, for additional reference, you can use the following articles to learn how to fix paychecks with taxes not calculating, as well as incorrect wages and taxes in QuickBooks:
- Payroll items on paycheck are not calculating or are calculating incorrectly
- QuickBooks Desktop calculates wages and/or payroll taxes incorrectly
Drop me a comment below if you have any other questions. I'll be more than happy to help. Wishing you a good one.