well as someone else said, you are not creating the invoice in basics.
Your creating it in word so you would detail all of the details of the fees and expenses on that word invoice so that the customer can see the break down.
In basics (or any accounts package where you are not creating invoices from it) all you are doing is recording that invoice on the customers account (I would use the number off your word invoice as reference) so that you can see what total money the customer still owes you and so that you can create a statement for them if there is still anything owing at the end of the month. You can keep it simple and just enter the date, the word invoice number as reference, the invoice and vat amounts.
You can record your expenses as payments out of your bank and you will have a nominal account for expenses in most accounting packages too.
The only thing I would be careful of is that if the total of the word invoice is X (fees + expenses) and you record an invoice amount of X on your customers account it will show as owing until you record that the customer paid you. So, if you recieve money in off the customer for the expenses, record it as a payment on the customers account so that as well as incresing what you have in the bank it will decrease what the customer owes you afterwards (if anything).