Relying on the construction project of the third runway of Hong Kong Airport，regarding the problems of slow moving of the deep mixing vessel and the large precision deviation required for the pile sinking construction，by consulting the relevant technical data at home and abroad，this paper studies how to calculate the real-time position of the target pile through the GPS position，and the ship is moved to the target position through automatic mooring and positioning in a short time.Using a high-precision coordinate system conversion algorithm，a pile position calculation algorithm based on the ship’s space coordinate system，and a filtering algorithm to reduce the influence of the ship’s rolling period，using high-precision sensors and control units，a high-precision automatic mooring positioning system is designed，the positioning accuracy of the system is within 0.1 m，and the angle deviation is within 0.2°.The successful application of this system not only improves the construction efficiency and construction accuracy of the deep mixing vessel，but also reduces the labor intensity of construction workers，and provides an effective solution for the design of ship-moving control systems for similar ships.