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Hi brandt-krause,
Knowing how to configure payroll for these instances is important, as is knowing what accounts and tracking numbers to use. To find out the correct accounts and tracking numbers, I recommend getting in touch with an accountant or the CRA. They'll also be able to let you know if there's any special that needs to be done to calculate this kind of thing in payroll.
Accounting for any additional tax deductions can be done through the employee's profile in the Employee Centre. It's just a few easy steps.
To learn more about payroll in QuickBooks Desktop, hit F1 on your keyboard as a shortcut to bring up the QuickBooks Desktop Help screen. On that screen, click the Help tab, then the Search button to activate the search bar. Type in keywords such as "payroll" to bring up related articles.
Stop by again if you need anything else. :)
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