The article presents the project design flow that leads to the implementation of the robust controller law in the FPGA chip. The designed robust FPGA controller is going to be used in the heteropolar active magnetic bearing system. The hardware and software architectures of the designed controller are presented. The hardware consists of the market available Spartan-3 Development Board and two specially designed A/D and D/A converters boards. The software architecture is made of several VHDL entities that are translated into the target FPGA chip. The results of the experimental preliminary tests show that the dynamic properties of the designed controller are very good and the authors hope that the dynamic performance, especially the stability of the whole active magnetic bearing system, will improve.