Hydrogen energy storage has many characteristics such as large energy storage capacity, long storage time, clean and pollution-free, and it realizes the interconnection and complementation of multiple energy networks and collaborative optimization. It is expected to become an important supporting technology to promote the development of distributed energy and improve the efficiency of terminal energy utilization. In order to improve the reliability and renewable energy utilization rate of islanded microgrid, the operation characteristics of typical electric, hydrogen and thermal devices are analyzed, and a multi-objective optimization configuration model of the islanded microgrid is proposed. Then, the target problem is solved based on simulated annealing particle swarm optimization (SAPSO) algorithm to obtain technical and economic indicators under different configuration schemes. Finally, based on the annual natural resource and electric heating load characteristic curve of a certain place in the north, the model built on MATLAB can effectively promote that the load loss rate of the proposed multi-energy complementary configuration scheme decreases by 3.18%, and the utilization rate of renewable energy increases by 8.37% compared with the traditional electric energy storage configuration scheme. Thus, the proposed configuration scheme can effectively promote the consumption of renewable energy and ensure the economy and power supply reliability of the independent micro-grid.