In order to explore the protective effect of pump-jet propulsion submarine under the two typical working modes of electric field protection and impressed current cathodic protection, the boundary element method was used to establish the corrosion-related electrostatic field model of the submarine. The influence of fairing and guide vane on the electric field protection and cathodic protection performance was simulated and analyzed. The results show that compared with the traditional propulsion mode, the peak-to-peak value of electric field of pump-jet propulsion submarine in seawater is reduced by about 38%, and it can achieve better electric field protection effect with only about 50% current value. In addition, no matter whether the whole boat coating is intact or not in the cathodic protection process, the peak electric field at the pump-jet propulsion device is reduced to a certain extent, indicating that the pump-jet propulsion device has better electric field stealth performance. However, in the process of impressed current cathodic protection for pump-jet propulsion submarines, good protection effect can only be achieved at the hull and the major axis. The impeller and guide vane inside the fairing are difficult to reach the protection potential, which is in an under-protection state, so local corrosion protection still needs to be strengthened.