Abstract: This paper aims to resolve the problems of lag and inefficiency on massive spatial data in real-time application and analyze the issue of efficient storage of spatial data.Adopting the thought of classified storage,incremental addition,management by indexes and real-time scheduling and combining the characteristic of file system and spatial data,the massive 3D spatial data storage structure based on file system has been designed and massive spatial data can be scheduled quickly.Test proved that the storage structure can support the application of spatial information technology and 3D visualization projects effectively.