It's nice to see you joining this thread. I'm here to lend a hand in handling those duplicate transactions on the reconciliation window.
We can delete those transactions or hide them using the Filters to get around this issue. Thus, I'd agree with what you've mentioned that doing the process can mess up your accounts since it's on the actual window.
To help you with the best process, I recommend seeking help from your accountant to ensure the accuracy of your books. If you're not affiliated with one, you can utilize our Find an Accountant tool to look for one in your area.
For additional resources fixing reconciliation issues, here are some articles you can refer to for more details:
Drop by this thread again if you have future concerns about reconciliations or organizing your transactions. I'm here to help.
