With the gradual implementation of the "Made in China 2025" plan, accelerating the improvement of manufacturing innovation system in cooperation with green and smart manufacturing has become a breakthrough in the transformation and upgrading of manufacturing industry. The shortages in the traditional Chinese medicine (TCM) pharmaceutical industry such as the low level production, the extensive process, the backward production equipment and the low level of automation seriously restricted the improvement of the overall level of the pharmaceutical industry, thus affecting the quality and safety of drugs. This paper combined with the status of TCM pharmaceutical industry, has carried on the analysis to the principles, opportunities and challenges of green and intelligent manufacturing of TCM, and puts forward the corresponding strategies and suggestions, in order to provide references for the structure adjustment, transformation and upgrading of TCM pharmaceutical industry.