Your confusion ends here, @lreardon.
Allow me to fill you in on everything you need to know about the Billable Expense feature in QuickBooks Online (QBO).
Setting up the billable expenses into a single account option isn't retroactive. Thus, the changes will only apply to the newly created transactions and forward. You'll want to go through each transaction with multiple income accounts and make the changes.
I'm adding this article to learn more about the feature: Enter billable expenses.
You might want to run a report that shows all your billable expenses. You can pull up the Uninvoiced Charges report.
Our doors are always open to help you again if you need more help with the billable expense feature. Have a pleasant day ahead.