This paper's research is based on the model of BDI Agent, carries out the research of the modeling and simulating the Virtual Enterprise's partner selection using Swarm simulation methodology under the background of Swarm simulation methodology and analyzes the simulation results to study the relationship between micro and macro behavior in this system. The time of duration, the number of virtual enterprises and the ability of transforming information affect the selection of its partner in some extent. This study will play a reference role to the modern enterprise alliances.