The reformed bio-diesel fuel irradiated by the ultrasonic wave is applied to the diesel engine of common rail in common use recently. This study has the object to examine the properties of engine performance and discharged materials. The bio-diesel fuel is mixed and used with the diesel fuel in common use at the ratio of $20\%;or; 100\%$. The ultrasonic energy is irradiated to the individually mixed fuel in order to reform the fuel. This fuel is applied to the engine in this experiment. And It is compared and analyzed from the experimental results with two cases irradiating the ultrasonic wave and no irradiating.