The focus of this study is to represent a methodology of analysis for integrated logistic system by means of the Evolution Strategies and Data Envelopment Analysis(DEA). The integrated logistic system is composed of AS/RS (Automated Storages and Retrieval System), AGVs(Automated Guided Vehicle System) and Conveyor System. We design the simulation alternatives with choosing the qualitative critical factors for the each subsystem. Evolution Strategies is used to optimize the quantitative critical factors and responses of each alternative. DEA is applied to measure the efficiency of the alternatives in order to select the optimal operation efficiency scheme. The method of analysis which combines Evolution Strategies with DEA can be used to analyze the qualitative and quantitative critical factors in the integrated logistic systems.