The invention provides a cascaded Hybrid amplifier control method and system. All the Hybrid amplifiers in the cascaded Hybrid amplifiers start to perform pump turn-on flow simultaneously: when the Hybrid amplifiers receive a pump turn-on request, Raman input optical power stability judgment is performed when the conditions of satisfaction are judged, operation of pump turn-on is performed on an EDFA, and the EDFA enters an APC working mode; operation of pump turn-on is performed the Raman, and gain deviation is calculated according to calculation of input optical power before and after pump turn-on of the Raman when there is no reflecting alarm; Raman gain is adjusted according to the gain deviation, an AGC working mode is switched on after completion of judgment, and the AGC working mode is an automatic gain control working mode; and the working mode of the EDFA is switched to the AGC working mode. The gain of the Raman can be accurately controlled so that control precision is enhanced and performance of the cascaded Hybrid amplifiers can be improved.