Abstract: Addressing the challenges of real-time information can not be shared and communicated for the automatic production line, along with production data that has been delayed and lack of synergy between order, manufacturing, and warehouse modules. Manufacturing execution system (MES) for the automatic production line is designed and developed based on Visual Studio software and Client/Server (C/S) framework. The comprehensive management of production order scheduling is implemented, real-time collection of the pharmaceutical production line data is collected through the S7 protocol, SQL Server database information is stored and analyzed, automated warehouse control and lean product inventory management are realized. MES system application results of pharmaceutical production line showed that the on-time delivery rate of orders is 100%, the accuracy of production line data is collected, the intelligent and lean of warehouse is accomplished. It provides a typical engineering application case and reference for industrial “smart transformation and digitalization”.