Sea transportation is one of the cheapest and most widespread types of cargo transportation, and the process of fouling of the vessel’s hull has an extremely negative impact on its maneuverability and running characteristics. This leads to excessive consumption of fuel, an increase in the cost of delivery of goods and environmental risks. Namely, when additional fuel is burned, the emission of the greenhouse gas CO2 increases. Considering the accompanying environmental risks in the long-term planning of the shipbuilding industry will ensure the sustainability of its development. In the study we suggest a simple way to assess quantitatively the development strategy of shipbuilding from the point of view of the accompanying economic and environmental consequences by constructing a matrix model for the industry development. The matrix model was applied to the Strategy for Development of the Shipbuilding Industry in Russia until 2035. In the future, on the basis of the offered model, it is possible to develop optimal environmentally neutral scenarios for shipbuilding development.