Abstract:In essence, the management of the major new drug development is a decision-making game between project undertakers and project managers. Therefore, instead of the traditional single linear performance management mode, studying how to achieve the goal of serving the government and effective market from the perspective of paying attention to the overall situation and meaningful innovation. Based on the dual management framework of government and market, from government failure and market failure, identifying the need for integrated management and control of knowledge, personnel and time elements as key success factors in the management of major new drug development. Then, construct a three-dimensional matrix of these three elements, and focus on building an evolutionary game matrix between scientific research managers and project undertakers to achieve optimal and stable management. The main point is to reduce the decision error and strengthen the achievement. Therefore, to administer the scientific research projects financed by the state , it is necessary to define the general analysis framework, optimize the evaluation method, and deal with the linkage between the output and the commercial operation to improve the project management performance.