Aiming at the lack of robustness for current position estimation method to rotation parts in aerial non-cooperative targets, a position estimation method using cross range cell entropy and local range cell entropy was put forward, which was based on analyzing of distributing characteristic of rotation part in high resolution range profile and inverse synthetic aperture radar. The proposed method promoted the accuracy of signal separation for rotation part when inverse synthetic aperture radar imaging was applied to aerial non-cooperative targets. The real data simulation results showed validation of the estimation method, and the steadiness of the estimation method was further tested by applying real data with additional noise.