The FNH-RI is organised in a hub-and-spoke model. Each European country can act as a node, which organizes its national research infrastructure and links it to the rest of Europe. In 2018 the FNH-RI Foundation was established to create and maintain a research infrastructure on Food, Nutrition and Health. The foundation forms the formal governing body of the FNH-RI community.
The Board of the foundation consists of representatives (on personal title) of National Nodes which have at the minimum obtained political commitment from their Member State. Currently the Board consists of representatives of the Dutch, Danish, Slovak, Italian, UK, North Macedonian and Spanish Nodes. Candidate members are: Portugal, Slovenia and Bulgaria.