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Hello jivemedia,
You'll have to check the employee's Pay Run Default settings and Tax file declaration making sure they have the correct setup. There is no special configuration is required for any employee classified as salary & wages. The system will assume this income type by default unless one of the other income types is selected for an employee.
Here's how to review applicable employees:
If an employee's income type is either working holiday maker or seasonal worked, you'll have to check the employee's Tax File Declaration set up.
If you need to check what pay runs was allocated to the income type, you can run the Detailed Activity Report in the Employees tab, and select Reports tab.
You can also check this article to learn more about Update employee income types for STP Phase 2.
You can always post a comment if you have more questions with QuickBooks Online. I'll be sure to get back to you as soon as possible. Have a nice day!
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