The radome boresight error degrades the microwave seeker ability and the missile guidance performance. It increases the miss distance, also. This paper propose a method of radome boresight error measurement and compensation. The compensation method consist of radome analysis and radome compensation. In the radome analysis stage, we can know that the electromagnetic characteristics distorted by radome. In the compensation stage, the look-up table is built and used for compensation. The test uses a FMS(Flight motion simulator) and adjusts the FMS setup error for more accuracy. The result shows that not using an elaborate radome measurement equipment, the radome boresight error is well compensated easily.