Thanks for getting back here in the thread, @Bexthom. I'll share some details about your concern so you can proceed to complete your tasks and keep your books accurate in QuickBooks Online (QBO).

A possible reason for this is that the rules you've set up in your account don't apply to those transactions you're trying to categorise. That said, if your bank rules aren't applying, it could be that rule you're using is based on a bank text when you meant to make a rule based on the description or vice versa.

Know that a bank text is an exact information QuickBooks receives from your bank. The bank text is the transaction you'd see listed in your bank account or on your bank statement. On the other hand, the description is a simplified version of the bank text to make it easier to understand. QuickBooks can simplify a bank text and say vendor name, for example.

Also, please know that QuickBooks only uses the data that your bank sends. You can reach out to your bank provider so they can explain more about why your Money In transactions was downloaded as expenses. It should not be the result if bank rules are set up specifically for Money In to be categorised as expenses.

Lastly, it's also possible that your bank rules are damaged. You can delete and recreate them to make sure they're working accurately.

See this article for more information: Set up bank rules to categorise online banking transactions in QuickBooks Online.

Additionally, here's an article about reconciling an account in QBO: Reconcile an account in QuickBooks Online.

You can also check this page about fixing issues with reconciliations in QBO: Fix issues the first time you reconcile an account in QuickBooks Online.

@Bexthom, If you need further assistance categorising your bank transactions in QuickBooks. Feel free to leave a message below. I'll be more than happy to provide further help to get this sorted out as soon as possible. Take care, and have a great weekend!