In order to solve the dynamic characteristics of fuel cell thermal energy in building equipment intelligent control system, this paper proposes the application research of building equipment intelligent control system in renewable energy thermal energy modelling. A cold water proton exchange membrane fuel cell cogeneration scheme was proposed. The heat produced by the installation is carried out by the cooling system, and the heat is exchanged between the heat exchanger and the hot water always heated in the heat exchanger. At the same time, a water tank is used to store hot water for heat recovery. Based on MATLsimulation coupling software platform, the simulation model of fuel cell cogeneration system was es­tablished, including reactor model, power system model, heat exchanger model, etc. The simulation model of fuel cell cogeneration system was built up, including the reactor model, power system model, and so on. The experimental results show that the system can achieve good response performance and anti-disturbance by using fuzzy PID controller to control and simulate the system. At the same time, the simulation results show that the optimal efficiency of the system in the power load is about 83%. In conclusion, it can meet the modern family's thermal power demands and improve the power consumption.