Hi Croberge,
Welcome to Community! Having inaccurate calculations in QuickBooks Desktop Payroll, can be quite concerning. I feel you would benefit more by contacting our QuickBooks Desktop Customer Care team outside of Community. They would enjoy the opportunity to work with you personally, so you can complete your payroll goals with confidence.
Feel free to touch base with us again, if you have other questions or concerns. We would be glad to help!