The growth of significance of economy’s innovative development of the Russian Federation determines necessity of deeper investigation of properties and specific features of its subsystems functioning, contents and forms of interaction thereof, seeking ways of increasing efficiency of control system. The construction complex (hereinafter referred to as the CC) as a priority area of the national economy, actively influences it and largely determines the trend of functioning, as well as the quality of life of the population. Construction, acting as the locomotive of the socio-economic development of the country and having a high cumulative potential, is associated with almost all industries and related fields of economic activity. Despite the fact that investment and construction activity makes a significant contribution to the growth of macroeconomic indicators of the Russian Federation, it is studied without a detailed understanding of the immanent properties and patterns of development as a complex self-regulating system. The strategic benchmarks for the development of the CC are structured by the demands of consumers not only in a safe, but also comfortable living environment with high environmental characteristics and aesthetic requirements. Meeting such requirements is possible under the condition of large-scale modernization of the construction sector with the use of breakthrough scientific and technical solutions in all segments of human activity. All this gives grounds for concluding that a fundamental change in the approach to the study of properties, features and factors of the development of the CC is necessary, which provokes the modernization of the management system to ensure a balanced innovation trend and high standards of quality of life of the population. Important factors in the development of the CC are fair competition, freedom of economic activity, the development of market mechanisms, corporate culture and moral values. The study of the functioning and scientific approaches to ensuring a balanced innovative development of the CC of the Russian Federation made it possible to form a conceptual vision and methodological basis taking into account the main provisions of the theories of systems, self-organization and synergetics and to briefly present it in this work.