Cavitation and system instability are the most common problems occurring in hydraulic power systems, especially operated under part-load conditions. Previous research show that when the hydraulic turbine operates apart from designed conditions, such as part-load conditions, a helical vortex rope occurs from the runner exit, and usually generates severe pressure oscillations. Cavitation usually appears and turns the rope to become a two-phase cavitation rope. The occurrence of cavitation rope is believed to be the main reason of the severe pressure oscillations. Based on a new multiphase flow simulation method re-developed in ANSYS CFX, this paper did the runner modification by using grooves and made the investigation of pressure fluctuation alleviation in a hydraulic turbine at different cavitation numbers. The behavior of cavitation rope and the pressure fluctuations induced by cavitation under typical part load conditions with modified runner were analyzed in present research. The results show that besides the pressure fluctuation induced by the rope rotating, cavitation induced a new pressure fluctuation with a lower frequency. For the embedded analysis the results show that the modified runner can decrease the vortex rope eccentricity and increase the vortex core pressure and finally alleviate the two types of pressure fluctuations. Also, the turbine efficiency has a little rise when equipped with the modified runner.