Aiming at the high-speed and high-real-time application requirements of fault current limiter, the control system based on embedded platform is designed and implemented in this paper. In modular design, the hardware includes three parts:data acquisition unit, main control unit and sub-module control unit. High-performance DSP and FPGA are adopted in the core control module. The control software consists of fault identification module, state monitoring module and logic control module. The fault identification module adopts amplitude calculation method based on short data window and the control logic and its related settings are also designed in detail. Through type test and RTDS test, the system can quickly identify short-circuit fault and control the fault current limiter, which lays a foundation for the engineering application of fault current limiter. This work is supported by National Key Research and Development Program of China (No. 2017YFB0903100) and Science and Technology Project of State Grid Corporation of China (No. 521104170043).