The invention provides a high-energy X-ray foreign matter detection control system and a method thereof. The high-energy X-ray foreign matter detection control system comprises: a high speed controller using a multithreading operation mode, a FPGA, a network chip which is used to realize network communication, first external equipment and second external equipment. The high speed controller is connected with the FPGA, the network chip and the first external equipment respectively. The FPGA is connected with the second external equipment. According to the invention, an automatic identification function of an ARM 9 controller is integrated so that a processing speed of the detection control system can be increased. The processing efficiency of the ARM 9 controller can be fully used. The FPGA is used to realize expansion of a system input/output interface and a control ability of the system can be improved. Simultaneously, a working burden of the detection control system can be correspondingly mitigated because of an information pretreatment function of the FPGA to the information. By using the network chip, a network transmission rate can be increased; an image resolution can be enhanced; connection stability can be increased.