The invention discloses a vacuum pump control system and method with dual pressure sensors, comprising a vacuum tank, a vacuum pump controller, a vacuum pump connected with a hose of the vacuum tank, the signals of the vacuum pump and the vacuum pump controller are connected, and the vacuum tank is also provided with an insulating Pressure sensor, differential pressure sensor and the joint used to connect with the vehicle brake booster system, the absolute pressure sensor, differential pressure sensor and vacuum pump controller signal connection; the absolute pressure sensor is used to monitor the absolute pressure value in the vacuum tank, the differential pressure Sensors are used to monitor the difference between the pressure inside the vacuum tank and atmospheric pressure. The invention provides a vacuum pump control system and method with dual pressure sensors, which can control the pressure of the vacuum source in different regions according to the local atmospheric pressure, and can accurately judge the abnormality of the sensor and provide an emergency plan.