Fees are attached to loan products. To remove a fee you will have to remove it from the loan product using the following steps:

Go to Settings and into your Admin area

Select Fees

Navigate to the fee you want to edit, then click the pencil edit icon 

Navigate to the Link Products area

Click on the loan product(s) on the right that you want the fee to be removed from. The product will now appear on the left and will no longer be linked to the fee. 

Remember to click on the update button before leaving.