The results of recent maritime accident investigations show that many maritime accidents are related to the attack of freak waves, which can sink ships instantaneously with colossal energy. To identify and forecast freak waves accurately and avoid the danger of freak waves to marine structures and people, we have conducted further research on freak waves. In this paper, we propose an efficient time-invariant three-dimensional (3-D) freak wave computational model to study the scattering characteristics of time-invarian 3-D freak waves and obtain a more explicit identification of their scattering differences. First, this paper adopts linear superposition method to simulate a 3-D random rough sea surface based on the JONSWAP wave spectrum and Donelan directional distribution function. Moreover, we analyze the effect of different angular frequencies on the simulated sea surface. At the same time, the Monte Carlo method is used to further simulate the capillary waves based on the random sea surface, and this method vastly improves the computational accuracy of the random sea surface. Then, based on the two-wave train superposition wave energy focusing mode, a numerical calculation method of time-invariant 3-D freak waves is proposed, and the time-series evolution process of 3-D freak waves is simulated. Finally, the backscattering coefficients of the 3-D freak wave surface are calculated using the two-scale method, and the electromagnetic scattering characteristics of the freak wave surface under different evolution stages, wind speeds, and radar incidence angles are analyzed. By this method, we conclude that the recognition of freak waves is more accurate under medium-high wind speed and significant incidence angle conditions. The experiments show that the research in this paper can identify and predict freak waves more effectively, further improve the forecast accuracy of future freak waves, and also have some application value for freak wave risk warnings.