Hello jodiew1
Thank you for your post.
If the sick leave isn't being taken off when processing a pay run it might be possible that the entitlement wasn't set up correctly or the leave wasn't processed correctly. I would suggest that you check the way the entitlement is set up.
As it is currently you will need to manually adjust the sick leave balance. To do this go to Card File command centre > Cards List, open an employee card > Payroll Details tab > Entitlements. Enter the opening balances (in hours) in the Balance Adjustment column.
Are you able to please also confirm if it is only the one employee this is affecting or is it happening to others as well?
I have linked our Help Article on leave and entitlements which covers how to set up and process leave.