In Wankel rotary engine (WRE), high mainstream velocity in combustion chamber blocks flame propagating to the end of combustion chamber, which causes high emissions and low combustion efficiency due to unburned mixtures. To solve this problem, a three-dimensional dynamic simulation model of a hydrogen-gasoline blends fueled WRE is built and validated. The in-cylinder mixture formation and combustion process are investigated under different hydrogen injection timing (HIT) and duration (HID) conditions. The study results show that the concentration of hydrogen distributed between the spark plug region and rear combustion chamber increases with retarded HIT and extended HID. Faster flame speeds are obtained for HIT of 110 degrees CA BTDC and HID of 40 degrees CA. At a fixed HID of 20 degrees CA, compared with HITs of 210 and 160 degrees CA BTDC, the peak in-cylinder pressures for HIT of 110 degrees CA BTDC are increased by 14.3% and 6.8%, respectively. At a fixed HIT of 110 degrees CA BTDC, the peak in-cylinder pressure in HID of 40 degrees CA is 52.3% and 9.21% higher than HIDs of 20 and 30 degrees CA. The highest in-cylinder pressure is achieved with the hydrogen injection strategy that HIT of 110 degrees CA BTDC, HID of 40 degrees CA. However, as the temperature increases with pressure, nitrogen oxide emissions are also increased with retarded HIT and extended HID obviously. Considering the lowest carbon monoxide is achieved and the unburned zone in the rear region of combustion chamber is eliminated in HIT of 110 degrees CA BTDC, of 40 degrees CA. The hydrogen direct injection strategy that HIT of 110 degrees CA BTDC, HID of 40 degrees CA acquires the best engine performance in this research.