Abstract:National Key R&D Program is one of the five types of programs which was formed after the reformation in the 13th Five-Year Plan period. Based on the information about the three batches of projects completed from 2016 to September 2019, a comparative analysis was conducted from the aspects of the number of approved projects and the amount of funding for the projects in different fields, the leading responsible unit, and the regional distribution of the projects.The results find that except for the basic supporting fields, the strength and intensity of national funding for other fields of key R&D program projects has increased every year in the form of adding new types funded projects. The number of projects and funding in the field of social environment ranked first every year, followed by the field of high technology, the field of basic research has the least funding in the key special projects besides the basic supporting fields, and the field of agricultural science and technology has not much funding in the key special projects and has the largest annual decline. Among the three batches of projects, the number of projects and funds in basic research and agricultural science and technology is significantly lower than the first two fields. Compared with scientific research institutions and enterprises, universities have the most number of leading projects, but the least average project funding, which is related to the fact that universities lead the most projects in the field of basic research. Scientific research institutions have the highest total funding and average project funding, and enterprises have the highest funding for a single project. The majority of the projects of the program are distributed in economically developed regions such as Beijing, Shanghai, Guangzhou and Jiangsu, and the number of projects in Beijing is about four times that of Shanghai which ranks second. On account of the research results, it is suggested that the management of key R&D program should give full play to the synergistic innovation effect of industry-university-research cooperation, guarantee the complementary and coordinated development among regions, and deeply dig the potential of the leading responsible units. While the management of national science and technology program should strengthen the top-level design, raise the starting point of research and development, improve the evaluation level, lead the direction of science and technology development, add the advisory service function of platforms, and force high-quality implementation by transformation of scientific and technology achievements.