In this paper, a panel method based on three dimensional potential flow theory is used to study the problem of wave added resistance. The time-domain motion response of Wigely III ship in head waves is calculated by AQWA, and then the wave added resistance of ship is obtained by near-field pressure integration method. By comparing the calculated results with the experimental data in literature, it is shown that the variation trend and peak value are in good agreement, and the accuracy and efficiency meet the research requirements. Based on the above mentioned method, the wave added resistance of a deep-V hybrid monohull in head waves is studied. The motions and wave added resistances of the deep-V hybrid monohull and the deep-V original ship advancing in head waves with various forward speed and wave frequencies are calculated and analyzed. The results show that the longitudinal motion response of the deep-V hybrid monohull is effectively suppressed and the wave added resistance is obviously reduced, the new type of ship has good engineering application prospects. The present method provides an approach of satisfactory accuracy and efficiency to predict wave added resistance of ships voyaging in waves.