Abstract:Collaborative Innovation Center is an innovative organization set up and cultivated according to the regularity of higher education and the needs of social development, which has the feature of diversity, conflict, substantive and independence and has the big difference with the university and its internal organization. According to its innate characteristics of property rights and the existence of principal-agent relationship, research on the basic direction, system arrangement, inspection standards and other issues of Collaborative Innovation Center management will help the center to construct and improve the internal governance structure, in order to realize the maximization of the center’s construction benefit especially the social benefit.