Aiming at the problems of parameter variety, rigid-flexible coupling and external unknown factors interference in the process of spacecraft propulsion, a two-degree-of-freedom fractional-order PID (2DOF FOPID) controller based on a coevolutionary shuffled frog leaping algorithm (CSFLA) is designed for the high-precision control of the gas rudder servo control system. The anti-interference and target tracking capabilities of 2DOF PID is combined with the advantage of FOPID, which is insensitive to the parameters of the controlled object, to improve the performance of the control system as a whole. CSFLA is formed by integrating the self-learning evolution of elite populations and the interactive learning strategy among populations into the SFLA to enhance the global searching ability and searching accuracy of SFLA, and CSFLA is used to optimize the parameters of the 2DOF FOPID controller. The simulation results show that the designed CSFLA-2DOF FOPID controller has the advantages of fast response speed, small overshoot, strong tracking performance and strong anti-disturbance ability, which improves the dynamic and static performance and anti-disturbance ability of the gas rudder servo control system.