How do i go back and add deductions made before i got paid?

im a Trucker running my own company. O/O but leased on with another company. Earlier in the year before i started using Quickbooks, A company i hauled for Gave us a fuel card to use that they would deduct each paycheck. Very Big write off. They also deducted a 30% commission, Insurance and other fee's before they paid my company for loads delivered. My CPA now doesnt want all the receipts i saved, she wants me to go back and enter them all. But fuel receipts came out pre payment and dont show up on my bank statements. How do i go back and add them? Is it complicated? My CPA offered to show me but at 500 dollars a phone call, i figured id ask here first.