Closing an existing loan and opening new loan account

The company has a loan which has been refinanced with a new account number.

I need to reconcile the final account - when I state that a deposit/payment/receive money was made to the account in question, MYOB applies it as a withdrawal which leaves me with double the sum owing instead of leaving a balance of 0.00.

If I make the deposit/payment/receive money as a negative amount, it applies it as both a depoist and withdrawal but does manage to leave the balance as 0.00

I am quite confused as to what process I am to use to show that the loan has been paid out.

Any guidance gratefully received