The balance characteristics of single-rotor helicopter with tail rotor hovering in ship airwake are modeled and simulated by using Matlab/Simulink. Firstly, the CFD software is used to calculate the airwake above the stern deck of the SFS2 ship at different wind speeds and directions. Then, the airwake is coupled with the rotor flow field to establish the flight dynamics model of helicopter shipboard operations in Simulink software. By using Simulink linear analysis tool, the balance characteristics of an unmanned helicopter hovering above the stern deck of the SFS2 ship are simulated and analyzed. Finally, the influence of the ship airwake on the control and attitude angle of the unmanned helicopter hovering near the ship surface is summarized.