The growth in demand for organic products is due to a conscious personal need and the popularization of a healthy lifestyle. Despite the relevance, demand, a large number of theoretical and applied research, foreign and domestic publications, the resource potential and prospects of the Russian Federation in this area of agribusiness have not yet been fully identified, and the development of scientific foundations for the development of organic production in the agro-industrial complex is required. The reason for the expected growth in the interest of both manufacturers and consumers in the organic segment of the food market is the entry into force of Federal Law No. 280-FZ «On organic products and on amendments to certain legislative acts of the Russian Federation» and the Interstate GOST standard on January 1, 2020 33980-2016 «Products of organic production. Rules for production, processing, labeling and sale». The general concept “scientific foundations for the development of organic production” formed by the authors is consistent with the world base of accumulated knowledge and is a systematized composition of theoretical provisions, principles, factors, methods and approaches for the development of crop and livestock production, processing and the market. A comprehensive theoretical consideration of the issue became the basis for building a comprehensive mechanism for its practical implementation at the regional level. The mechanism includes interconnected blocks of controlled and control systems, specific processes and specific development methods aimed at them, as well as indicators of development results for all interested participants: manufacturers, processing organizations, infrastructure and social facilities. Modern methods and techniques, developed in detail and applied in research, aimed at studying the resource potential and conditions of the regional market, grouped in four directions in the form of methodological aspects, made it possible to obtain the results proposed for discussion.