Hi there,
QuickBooks Online makes it easy to manage employer taxes, I'll be happy to steer you in the right direction.
I want to make sure we're on the same page. I recommend you to contact our support team for further assistance with this. One of our agents will be happy to take a look at your account and share more info. Here's the link with the contact details for our support team.
Let me know if you have questions. I'll be on standby.