When you have an employee that has a student loan you will need to go to the: Employee Details Page > Employee Settings > Tax and NI Details.
1: You will need to tick the box to say that the employee has a student loan.
2: You will then need to choose from the drop down menu the student loan type:
Once you have filled out the details press the 'Save' button.
Every time a pay run is created a check will be made with HMRC for any Start/Stop notices in relation to the student loan. Deductions will be calculated accordingly in the pay run.