A dual pump smart control system. The operating time and the number of simultaneous operations are analyzed and compared with a reference time and a reference number, so that a controller determines whether or not the operation is normal. Afterwards, the driving of a first pump and the driving of a second pump are differentially controlled depending on whether or not the operation is determined to be normal by the controller. Thus, a malfunction caused by the concentration of load at a specific pump is prevented. Accordingly, the dual pump smart control system precisely controls the driving of the dual pumps and enables the pumps to operate efficiently.