The invention relates to a rapid prototype design and semi-physical simulation method and system for a flight control system and belongs to the field of flight control. The rapid prototype design and semi-physical simulation system comprises a flight dynamic model operation module, a three-axis rotating table, an attitude sensor, a pressure conversion device, a pressure sensor, an analog computer, a lifting steering engine, an auxiliary wing steering engine, a direction steering engine and a balancing steering engine. By designing and building a prototype and semi-physical simulation system for the flight control system, flight control system design, mathematical simulation and a prototype system can be realized on the basis of the model, performance testing and software verification carried out on the flight control system can be finished in real time through semi-physical simulation, and integration of flight control system design, mathematical simulation, the prototype system and semi-physical simulation can be realized.