As one of the three major transportation systems, ocean shipping has the advantages of low transportation cost, large transport capacity and high safety. However, NOX and SOX in marine engine emission also cause serious air pollution, demanding urgent control. This paper summarizes the current control technologies of NOX and SOX in marine engine emission at home and abroad, and introduces the working principle, advantages and disadvantages of each technology. It is believed that the integrated technology of desulfurization and denitration based on the exhaust gas treatment system is more suitable for refitting old ships due to less modification to the ships. However, the new energy green ship technology based on alternative fuels and fuel cells is the most ideal solution for the control of ship pollutants and the reduction of greenhouse gas emissions in the future.