The invention discloses a power battery water-cooling unit system and an intelligent temperature difference control method thereof. The power battery water-cooling unit system comprises a water cooling unit and a water cooling unit controller, wherein the water cooling unit comprises a compressor, a pressure switch, a condenser, a condensation fan, a liquid storing and drying tank, an expansion valve, a plate type exchanger, a PTC heater, a three-way valve, an inlet water temperature sensor, a power battery box, an outlet water temperature sensor, a water tank and an electronic water pump, wherein the compressor, the pressure switch, the condenser, the condensation fan, the liquid storing and drying tank, the expansion valve and the plate type exchanger are connected with each other in series. Through the power battery water-cooling unit system, the automation degree of the control of the power battery water-cooling unit is improved; the control system is capable of judging the difference between the battery average temperature and the outlet water temperature of the water cooling unit, adaptively adjusting operation rotation rate of the compressor, the electronic water pump and the condensation fan in real time through an intelligent control algorithm, indirectly controlling a battery to operate in the optimal temperature range and the optimal temperature difference range and predicting the battery temperature trend in advance through ampere-hour integral.