The invention discloses a pontoon type water intake pump station, which comprises a mobile power supply, a dual-power-supply variable-frequency control cabinet, a variable-frequency motor, a pump head, a vacuum generation device, a flowmeter and a pontoon, wherein the mobile power supply, the dual-power supply variable-frequency control cabinet, the variable-frequency motor and the pump head are all fixedly arranged on the deck of the pontoon, the flowmeter is used for detecting the change of flow, the mobile power supply can provide direct current, the dual-power-supply variable-frequency control cabinet can switch the direct current and the alternating current and output three-phase alternating current with required frequency for the variable-frequency motor to use, and the vacuum generation device is used for exhausting air in the pump before the pump is started and guiding water to fill the pump. According to the invention, the pontoon type water intake pump station is convenient,flexible and high in adaptability, can move at any time, is suitable for temporary river and lake water taking, is suitable for variable-working-condition occasions, adopts variable-frequency speed regulation, changes the performance of the pump through speed change so as to adapt to the change of the lift of the device caused by liquid level change, and adopts dual power supplies, so that energysupply is more convenient.