Welcome to the Community, @THEAOB.
Let me share with you some information about the duplicate file issue you're having in QuickBooks Desktop (QBDT).
First off, you're unable to combine these two company files since they are separate ones with different transactions. You'll have to recreate the transactions made from one company so it will match with the other one.
To prevent this issue from happening in the future, please ensure that the Multi-User mode is enabled in QBDT. This way, the transactions won't be saved in two different company files. To verify if you're already in multi-user mode, here's how:
- Let's go to the File menu.
- If you're able to see the Switch to Single-user mode, then you're working on a multi-user mode. If not, then click on that option then follow the onscreen instructions.
For future references about managing multi-user mode in QuickBooks Desktop, refer to these handy articles:
I'm here in the Community to help if you have more queries about managing reconciliation and multi-user mode in QBDT. Take care and have a great day, THEAOB.