With the accelerated development of e-commerce, the logistics service industry has expanded rapidly. As one of the most critical links in the supply chain, the performance of warehouses has received more and more attention. This paper first identifies and extracts the critical performance indicators with the most impact on the economy, environment, society, etc. through the literature review, and ranks the indicators. Then, using FLEXSIM software, four different battle-based and Vehicle-based AVS/RS systems were built to complete the implementation of relevant performance indicators. Finally, a comparative analysis of varying warehouse systems is made using the fuzzy hierarchy method to select the optimal automation solution.