Hello TMK1-
This is expected behavior. You are not able to override at what amount the super will accrue, what I believe you might have ticked is to override the Super Rate when it begins accruing (ex. 9.5% standard to 10.5%) in the pay rates of the employee. Super in QuickBooks Payroll will only accrue as per the ATO guidelines, if the wages exceed $450 or more (before tax) in a calendar month. Read more about when to pay super here.
If you are interested in paying this employee super despite their qualifications, you can always make additional contributions to their fund. Here is more information on how to do that, How to set up employer super contributions in QuickBooks Payroll
Reply here if you have any questions.
-Christine
