I appreciate what you've done so far on your end, @ck46. Let's ensure you can correctly reconcile your account and get you back on business.
To begin with, please know that even after you delete the transaction, it may still be on the list, but the difference should be zero. Rest assured, it won't affect your reconciliation. Also, marking the entry as checked is correct.
Since you've already completed the Verify/Rebuild process, we can either undo the previous reconciliation and redo it or ignore the discrepancy and let QuickBooks enter an offsetting adjustment.
For further information and detailed guidance on reconciling your account, please refer to this article: Fix beginning balance issues in QuickBooks Desktop.
Once you've reconciled your account, you can check out this article to learn more about QuickBooks: Get Started QuickBooks Tutorials US.
Let me know if you need further assistance with your reconciliation. Keep safe.
