National navies equip their submarines with Autonomous Underwater Vehicle (AUV) technology. It has become an important component of submarine development in technologically-advanced countries. Employing advanced and reliable recovery systems directly improves the safety and operational efficiency of submarines equipped with AUVs. In this paper, based on aerial refueling technology, a cone-shaped recovery system with two different guiding covers (closed structure and frame structure) is applied to the submarine. By taking the Suboff model as the research object, STAR-CCM was used to study the influence of the installation position of the recovery system, and the length of the rigid rod, on the Suboff model. It was found that when the recovery system is installed in the middle and rear of the Suboff model at the same velocity and the same length of the rigid rod, the Suboff model has the good stability and less drag. It experiences the largest drag when being installed in the front of the rigid rod. Moreover, when the recovery system is installed in the front and middle of the rigid rod, the drag increases as its length increases, and the lift decreases as its length increases. Compared with the closed structure guiding cover, the Suboff model will have less drag and better stability when the recovery system uses the frame structure guiding cover. Besides, the deflection and vibration of the rigid rod were also analyzed via mathematical theory.