After entering in all of the line items for the endorsement you will hit generate transaction. This generates commission on premium for the agency and agent as well as the necessary payables and receivables. You will still need to add the commission for your agent on the agency fee. Go to the "add item" menu for the agency fee. Select to add agent commission to that fee. If you have a commission rule in place for agency fee the rule will calculate the amount due for you. This commission can be reconciled just as you would agent commissions on premium.