The multi-energy complementary power generation system with “wind-wind fire storage” as a typical representative is an important path to promote the symbiotic and complementary collaborative development of thermal power and new energy. Under the background of the construction of new power system and the integration of wind-wind, fire and storage, the scientific and rational configuration optimization of multi-energy complementary power generation system has become an important prerequisite for its sustainable development. In this paper, a two-layer optimization model for multi-energy complementary power generation system configuration based on particle swarm optimization is proposed. The outer layer optimization aims to maximize the net income of the wind-wind storage power generation system, and the inner layer optimization aims to minimize the carbon emission of thermal power units, so as to realize the balance between environmental benefits and economic benefits of the multi-energy complementary power generation system. The research results provide a reference for the planning and configuration of wind-wind-fire storage complementary power generation system.