How do you manually enter eBay fees to a customer invoice payment when selling on eBay?

Recording eBay fees have two options available in QuickBooks Online (QBO), Maxine. I'm happy to outline the detailed steps to achieve your tasks.

To add the fees to the invoice payment, you must manually add additional line fees. Let me show you how:

1. Open the original invoice and edit it. 
2. On the second line, add the fees item if you already have one. If you don't have one, tick +Add new, then tap Service on the Product/Service information page.
3. Type "Fees" depending on how you name the item and pick an appropriate Income account.
4. Choose Save and Close.
5. Add the calculated Amount as negative, then click Save and Close. 

Another option is to create a sales receipt and then expense. Go as follows:

1. Go to the New menu and choose Sales Receipt.
2. Select the payment processor from the Customer dropdown.
3. In the Category column, choose the expense account to record the fee and enter the amount.
4. Click Save and Close.

Once then, create an expense and match your sales with your deposits. For more details, see this link: Record third-party sales and fees in QuickBooks Online. Please know that the article is tagged as the United States, but no worries, as they have the same process in Australia. 

Moreover, check out the following articles below to know how to easily import your sales transactions and eBay expenses, and other related matters: 

• Taxes for eBay Sellers: What You Need to Know
• Connect to eBay Managed Payments with QuickBooks Online

You can always swing by anytime if you need help with anything else. Have a great day!