Good day, @kentuckytakeout.
Are you using QuickBooks Online Payroll Enhanced? You've mentioned that you've filed your taxes through QuickBooks.
If so, QuickBooks won't automatically resubmit these taxes since you're not using the Full-Service subscription.
With regards to your concern about the penalty charged, I'd recommend reaching out to the IRS to verify this matter. This way, you can check what forms are successfully filed and what are don't.
Just open this article and click the Withholdings drop-down list to show view their contact information: Internal Revenue Service Payroll Tax Compliance.
In addition, you can check out our Payroll Tax Compliance Link. This will show you the list of important info to ensure you're in compliant with payroll tax regulations.
Should you have any follow-up questions or concerns, don't hesitate to post again here in the Community or leave a comment on this thread. Take care and have a good one.