Radome aberration error causes degradation of miss distance as well as stability of high maneuver missile system with RF seeker. A study about radome compensation method is important in this kind of missile system design. Several kinds of methods showed good compensation performance in their paper. Proposed adaptive Particle filter estimates line of sight rate excluding the radome induced error. This paper shows effectiveness of adaptive Particle filter as compensation method of radome aberration error. Robust performance of this filter depends on external aiding measurement, target acceleration. Tuning of system error covariance can make this filter unsensitive against the error of target acceleration information. This paper demonstrates practical usage of adaptive Particle filter for reducing miss distance and increasing stability against disturbance of radome aberration error through performance analysis.