Look under Gear > Account & Settings > Expenses > click on the answer to "Make expenses and items billable" in the on position and your markup option is there.
If you are using QB Merchant Services, you should make your deposits through Banking, Make Merchant Service Deposits. Then it will go offer to go online and it ...
I assume that your cash register keeps up with sales tax.[1] Run all Square deposits to Gross Sales - use bank rules to make this easy and automatic.[2] Set up ...