The port is a key energy consumption area of the transportation industry. How to improve energy efficiency, reduce environmental pollution, and achieve comprehensive energy management are topics of common concern. The design of the integrated energy is used to achieve the optimal energy efficiency in the port area and improve the utilization of energy infrastructure. Based on the analysis of the integrated energy system and load system in the portarea, the multi-agent system and colored Petri net theory are used to establish an optimal dispatching model for the integrated energy system. According to the electricity load, the energy supply sequence of the comprehensive energy is reasonably allocated, and the clean energy is used to the greatest extent. Feasibility and effectiveness of the optimized scheduling model are verified by examples. The research result is of great significance for improving the efficiency and economic benefits of integrated energy in the port area.