Thanks for reaching out to us about the payment with the RECON status under the NUM column.
We currently have an ongoing issue with the customer payments getting double applied to QuickBooks Desktop. Since we have limited tools in this public forum, I recommend contacting our Merchant Services Team for further assistance.
They'll be able to provide a workaround while our development team is working for a fix. They'll also add you to the Notification list for you to receive email updates.