Hi there, @molbrez.
Thanks for letting me know about this concern. I've got some additional information to share in fixing this reconciliation concern.
In QuickBooks Desktop, data won't be removed unless it was deleted manually. In cases like this, we can go ahead and run the verify your data. This can help fix data-related issues on a company file.
Before doing so, make sure to open the correct company file. Once verified, you can now start the process by following these steps below:
After that, you can proceed with verifying the data:
For detailed information about this, please see this link: Resolve data damage on your company file.
If the issue persists, I'd recommend reaching out to our Customer Care Team. They have the tools to look further into this matter and can open an investigation ticket if necessary.
I'm still here to help if there's anything else that you need. Just leave a reply below and I'll get back to you. Have a lovely day ahead!