The author examines the development of regional industrial systems. The subject of the research is a set of organizational and managerial relations in the planning process of the development of regional industrial systems. The paper highlights the specific characteristics of housing and communal services, causing planning features of its development. Analytical data, the current state of industries in the region confirm the requirement for economic and institutional reforms in the system of the strategic planning of the region development, taking into account the provisions of the federal law «On the strategic planning in the Russian Federation». The most important tool for the development of the regional branch systems are state programs. However, there are problems in assessing the effectiveness of measures specified in the program state, respectively, determining the optimal plans. An important element of the planning system of the region is the scientific-methodological support of documents. The author has highlighted the shortcomings in the existing methods to evaluate the effectiveness of the implementation of government programs in the region. In a resource-constrained environment, the important challenge is to define measures to reduce the cost to implement investment projects in the region at various financing options. The economic-mathematical model of the optimization of an action plan implemented within the framework of the regional branch system is carried out. The author has conducted variants calculations and determined the optimal development plans for housing and communal services of the Trans-Baikal Territory. The proposals and recommendations to improve the planning of regional development including a set of institutional arrangements are elaborated. The author proposes to establish a Council for Strategic Planning headed by the Governor of the Trans-Baikal Territory, the highest official. This Council should include the representatives of executive authorities, public and scientific organizations in each direction of the socio-economic development on an equal footing.