With the rapid development of China's economy, China's biopharmaceutical engineering has also ushered in rapid development. The development of biopharmaceutical engineering not only symbolizes the improvement of China's comprehensive strength, but also promotes the development of the national economy. From the current development situation, although China's biopharmaceutical engineering has made great progress, there are still many aspects to be improved and promoted, especially in innovation. Therefore, this paper will analyze the innovative development trend of biopharmaceutical engineering in China, and it will give corresponding development suggestions according to the current situation.