The invention relates to a charge-discharge control method and device of an electric energy storage device in a hybrid energy system. The method comprises the steps of: selecting a control period of an electric energy storage device in a hybrid energy system, and obtaining electric energy vacancy of a combined heat and power generation device in the hybrid energy system in the control period; determining charge-discharge time of each battery pack in the electric energy storage device in the hybrid energy system according to the electric energy vacancy of the combined heat and power generationdevice in the hybrid energy system in the control period; and performing charge-discharge for each battery pack in the electric energy storage device in the hybrid energy system by employing the charge-discharge time of each battery pack in the electric energy storage device in the hybrid energy system, wherein the electric energy storage device in the hybrid energy system comprises two battery packs. The dual-battery pack electric energy storage method is provided to allow the electric energy stored in the dual battery packs to be respectively supplied to the electric load during the controlperiod peak so as to improve the lives of the battery packs, reduce the dependence of the system on the power grid, reduce the operation cost of the system, improve the energy usage efficiency and reduce the waste gas discharge amount.