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Record a Deposit of the supplier cheque: From the Banking menu, click Make Deposits. If the Payments to Deposit window appears, click OK. In the Make Deposits window, click the Received from the drop-down and choose the supplier who sent you the refund. In the From Account drop-down, select the appropriate Accounts Payable account. In the Amount column, enter the actual amount of the Supplier cheque. Enter a memo, cheque number, payment method, and class. Click Save & Close.