China's local colleges and universities are the main force of China's higher education. Due to the limited construction funds, weak discipline foundation and other reasons, China's local colleges and universities generally face the embarrassment of weak discipline. How to break the constraints of the traditional management system, concentrate and efficiently allocate limited resources to achieve the overall improvement of the discipline construction level, the successful experience of China's special economic zones provides model reference and construction guidance for Chinese local universities. This study takes the subject special zones of local universities in China as the research object, chooses the theoretical system of economics and institutional theory as the logical starting point of the research, constructs the research framework of three dimensions of idea value, system design and action strategy, takes the reform of special economic zones as the institutional model and practice reference, and carries out the research from five dimensions of reform subject, logic, path, idea and strategy. Explore the effective development path of the rise of discipline construction.