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Hi Louis11,
The leave accruals of an employee is based on how you've set up the leave category and the employee's leave allowances. You can check the settings using the steps below:
To check the employees leave allowances:
If all settings is correct, you can enter a specific number of hours you wanted to pay the employee's leave when processing the pay run.
If you need further help with processing the leave taken at half pay, I would recommend contacting directly our Customer Care Team. That way, they can initiate screen sharing and check the pay run in a secure form.
Feel free to post again in the Community if you have further concerns. We'll get back to you as soon as we can. Have a great rest of the day!