This paper presents a new method for motion and vibration controls of a three dimensional flexible shaking table. The shaking table is need of lightweight for reproducing the earthquake wave and the variety of input signal exactly. However, then the elastic modes appear on shaking table in operating frequency region. So it is important to control motion and vibration of shaking table simultaneously. The research purpose is to control the vibration and motion of the shaking table by using the reduced order modeling technique and LQ and LQI control theory. The modeling procedure and the control design are described. Control simulations on the discrete model are carried out to demonstrate the effectiveness of the method. Experimental work is shown to demonstrate a final verification.