Can I split employee wages and payroll taxes between two companies?

I appreciate you sharing this with us here in the Community, @TTR1. It's my pleasure to provide you with the information to clarify your concern about splitting wages and payroll taxes between two companies.

In your case, you can't split the wages and payroll taxes between two companies in QuickBooks Online (QBO). 

You'll need to create separate paychecks and direct deposits per location. I'll be glad to show you how.

Once you've set up and added a payroll schedule for your employees, you can create your paychecks and send your payroll with each location to your employees.

Here's how:

1. Access your Payroll menu, then go to Employees.
2. Click Run payroll.
3. Pick your desired payroll schedule and click Continue.
4. Review the QuickBooks Bank account to track your payroll, the Pay period, and the Pay date.
5. Select the employee you'd like to pay.
6. Enter hours, compensation, memos, or any other necessary paycheck info. Also, you can select Review Approved Time if you use QuickBooks Time. 
7. Hit Preview Payroll, then Submit payroll.
8. Then, select Finish payroll.

Please refer to this article for the process: Create and run your payroll.

Furthermore, you can pay your employees with direct deposit into their checking, savings, or money market accounts. Here's an article to set this up: Set up direct deposit for employees.

I've also added the following articles for future reference:

• Print paychecks and pay stubs in Online Payroll
• Run payroll reports
• Understand the calculation of your payroll taxes

Please keep me updated about this matter or if you have any other payroll or taxes concern. I'd be glad to assist you. Take care always!