OBJECTIVE：To p rovide reference for improving the level of technological innovation and promoting the high-quality development of pharmaceutical industry in Fujian province. METHODS ：A total of 452 people were interviewed by relevant departments of pharmaceutical industry ，industry associations ，pharmaceutical enterprises and some consumers in Fujian province. After sorting out the interview data ，based on the theory of causal loop diagram and problem basic model methods ，the key variables and problem basic models affecting the technological innovation system of pharmaceutical industry in Fujian province were investigated . The leverage solutions and suggestions were put forward. RESULTS & CONCLUSIONS：The scientific and technological innovation environment ，managers’innovative ideas ，scientific and technological innovation motivation ，enterprise profits，product’s market competitiveness ，social organizations of pharmaceutical industry ，and industrialization of scientific and technological innovation achievements in the technological innovation system of pharmaceutical industry in Fujian province were closely related to the technological improvement of pharmaceutical industry in Fujian province. There were basic modes of “the rich getting richer ”for the technological innovation system of pharmaceutical industry in Fujian province ，i.e. the investment of external resources on scientific and technological innovation of pharmaceutical enterprises was mostly concentrated in the pharmaceutical enterprises above designated size. At the same time ，due to the lack of industry-research-university interaction and the unsmooth achievement transformation channel ，some small and medium-sized pharmaceutical enterprises with the potential of scientific and technological innovation or with traditional advantages may form the problem basic model “to attend to trifles and neglect the essentials”. It is suggested that the subjects related to pharmaceutical industry should give full play to the role of various scientific and technological platforms ，strengthen the attention and support to innovative small and medium-sized pharmaceutical enterprises ， create and optimize the financial service environment for scientific and technological innovation of pharmaceutical enterprises ，and support pharmaceutical enterprises with innovation power and potential to carry out technological innovation projects.