Nice to meet you, @hftjm.
It sounds like you might have some data damage with your company file since all of the funds have been deposited. Don't worry. I've got you covered. We can use the Verify and Rebuild data tool to remove the damage from the company file. Here's how:
Afterward, try to go back to the Undeposited Funds Account and see if the balance is still there.
Here are two extra links that can help you out in the future:
Touch base with me after trying these steps. I want to make sure that we're able to get this issue resolved. I'll be waiting for your response.