Natural capital is one of the key components of regional development. In view of the increasing competition for human capital the environmental problems of megacities have taken on even greater significance. Highly qualified personnel impose high demands for the quality of the environment. Regional authorities face a set of challenges related to the reduction of technogenic and anthropogenic loads on the environment. The established practice for territorial administration is based on the program- and goal-oriented approach and does not correlate with the complex tasks being solved frequently. Modern tools including the system of balanced scorecard and various intellectual capital navigators are currently being tested, which raises strong objections from regional authorities. To solve the problems of environmental development effectively, we should reach a balance between the interests of policymakers, population and business. Current contradictions require developing a special mechanism for finding common ground. The choice of management methods and development of management decisions should be based on the principles of systematic approach and feedback. The organization of knowledge and information flows as well as ensuring efficient knowledge exchange are of great importance for delivering an adequate regional policy. As part of the study, the authors have substantiated the possibility of applying knowledge management methods and tools for regional environmental development management and have undertaken the research of key regional stakeholders' response to the management activities aimed at improving the environmental situation as well as the impact both prior to and after applying knowledge management tools.