In recent years, the near space hypersonic vehicle is widely concerned by the military in the world. The near space hypersonic vehicle develops quickly. Based on this background, this paper chooses near space hypersonic vehicle as the research object, on the basic principle of maneuvering target tracking based, summarizing the improvement direction of the algorithm of maneuvering target tracking in recent years. Starting from the maneuvering target model and adaptive filtering algorithm, improved algorithm is proposed for the idea, design and development of near space hypersonic velocity of target tracking system to provide support on theory exploration.