If you want to add an additional Percentage based Fee to a Sales Order here are the steps:
1. You must first turn on the option. Log into AllOrders as the admin.
Go to COMPANY-->PREFERENCES-->SALES ORDERS-->Company Preference tab--> FEATURES tab
Check the box to " Enable Percentage based additional fees"
2. Create a new Item Group ( Other Charge Group) called Fees ( or any other name that you choose)
*** Make sure to check the box that says " is additional fees" ( this will make the options appear in the
special field at the bottom of a SO)
3. Now create an item and add it to that new Item Group.
*** note** this is a Percentage not an amount
4. When you create a new Sales Order, you can now add that Fee Item on the bottom of the Order.