The invention provides an energy scheduling method and system for a composite energy storage capacity of an active power distribution network. Respective modeling for a wind power generation unit, a photovoltaic power generation unit and an energy storage unit in the active power distribution network is carried out to obtain specific expressions of output power of a single fan, output power of a photovoltaic cell and an energy storage state of charge SoC in charge and discharge processes. During energy distribution, a super capacitor compensates for a high-frequency component in vacancy power,and the remaining low-frequency component is compensated by the energy type storage battery. When the actual charge and discharge power of the super capacitor and the actual charge and discharge power of the storage battery are obtained, the energy storage rated power limit value and the energy storage state of charge are considered for power correction. Taking the minimum daily average cost of the composite energy storage device as an optimization target, a target function is established. The configuration capacities of the storage battery and the super capacitor are solved for the target function by taking the energy storage capacity constraint, the energy storage maximum charge and discharge power constraint, the instantaneous power balance constraint and the load power shortage and energy overflow constraint as constraint conditions.