Aiming at the problems of too long operation time and complex modeling of the three-dimensional roadway intersection modeling in geotechnical engineering, a method about cylinder-Axis Aligned Bounding Box (AABB) two-level bounding box detection was proposed according to the characteristics of tunnel's shape. The proposed method could quickly find out the possible intersected triangular elements and established a new approach to solve the Irregular Triangular Network (TIN) modeling problem of tunnel intersection by combining the three-Dimensional (3D) Boolean operation. The basic principles of the cylinder-AABB double bounding box collision detection and the key technologies about Boolean operation to implement intersection modeling in 3D were described, and an optimization scheme for generated entity mesh was proposed. Through the engineering examples, it is proved that, compared with the Oriented Bounding Box (OBB) hierarchical bounding box method, the modeling method by cylinder-AABB detection increases nearly 50% on the bounding box production efficiency in the roadway surface intersection modeling. The proposed method has the advantages of simple modeling, short detection time, high top detection accuracy, and so on.