This paper introduces the working principle of a high-temperature high-speed wind tunnel and analyzes the necessity of coordinated control of fuel flow-rate for the fuel supply system. In order to achieve a coordinated control of fuel flow-rate, a proportional integral (PI) cross-coupled algorithm is designed. Because PI parameters in PI cross-coupled algorithm are invariant, a better control effect cannot be achieved when there are time-variant parameters in system, so a fuzzy PI adaptive cross-coupled algorithm with model reference is designed. The simulation and experimental results show that the fuzzy PI adaptive cross-coupled algorithm with model reference has better control quality compared with the PI cross-coupling control algorithm.