Final Reconciliation
After the payment to the credit card company has been processed, go back to the reconciliation in progress.
Click on the Debits-Deposits & Other Bank Credits and select the payment that was just created.
If the payment is not for the complete balance, enter the statement balance minus the payment. This is the remaining liability in the credit card account. Enter this as a negative amount on the reconciliation header as the statement balance.
The “Left to Clear” amount should now equal zero. Choose 
to reconcile the credit card account.
to reconcile the credit card account.