The invention discloses a cooperation modulation method suitable for a hybrid cascade photovoltaic system with energy storage. The hybrid cascade photovoltaic system with energy storage comprises an energy storage unit and a common photovoltaic unit. The hybrid cascade photovoltaic system with energy storage is characterized in that the energy storage unit and the common photovoltaic unit respectively employ different cooperation modulation methods, the energy storage unit employs a specific harmonic wave elimination modulation method, the common photovoltaic unit employs a carrier wave phase shift pulse width modulation method, an output voltage of the common photovoltaic unit is utilized to compensate low frequency harmonic waves of voltage waveforms outputted by the energy storage unit, and cooperation modulation of the whole photovoltaic system is realized. The method is advantaged in that a cascade type inverter output modulation problem can be solved on the condition that DC side voltages, output voltage amplitudes and phases of two different units are different, elimination of the low frequency harmonic waves can be realized in a wide modulation ratio scope, calculation is simple, and not only can the method be suitable for single-phase systems, but also the method is suitable for three-phase systems.