The article considers the environmental problems of the trans-border regions of Siberia and the Far East in the conditions of the Eurasian integration. The environmental consequences of functioning of the economies of the near-border East Asian countries for the Russian trans-border regions are shown. Russian trans-border Siberian and Far Eastern regions perform economic cooperation with the countries of the Asia-Pacific region in various sectors of the economy: mining and manufacturing, agriculture and forestry, nuclear energy, transport and other industries. At the same time, the environmental risks of such cooperation are not always evaluated. This is evidenced by the deteriorating environmental situation in the regions under consideration. The article proposes measures to improve the state environmental regulation of the Eurasian integration process: the development of low-carbon energy and energy-efficient technologies, the use of modern agricultural technologies, focus on the formation of a green economy, coordination of environmental legislation of the cooperating Eurasian states.