The geologic modeling for geologic bodies with faults was a difficulty, which was more complicated than those layered strata and its spatial analysis function after the achievement of the model was also a new research arena. Taking a gypsum mine as an example, the authors introduced a flowsheet of building a 3D model by complicated borehole data with strata loss and strata reverse, 3D spatial analysis methods on those models and their geologic application. It was concluded that 3D modeling and its spatial analysis for geologic bodies and structure properties were advantageous to the understanding of geologic evolution and optimization of mining design.