This paper utilizes a system identification to model EDM using Arduino and fuzzy controller. System identification is a useful tool for identifying the model depending on the input and output data of the controller. However, derivation of modeling process from first principles is often difficult due to its complexity. The proposed method is used for identifying the mathematical model of EDM from the real time experimental data from gather data from the systemy feeding the DC motor sine sweep or white noise inputs. The model identification of EDM servo system was conducted by using MATLAB/Simulink program and after that the obtained transfer function for the system. The proposed controller has been applied by using FLC .The results showed that the controller can work well with a quick response, no overshoot output and high control precision.