The Secretariat works closely with collaborating partners such as Governments, national and research institutions, the “Consortium for Conservation of Coastal and Marine Ecosystems in the Western Indian Ocean” referred to as the (“WIO-C”) membership and other regional NGOs.
- Sustainable Seas Trust (SST)
- Consortium for the Conservation of Coastal & Marine Ecosystems in the Western indian Ocean
- GRID-Arendal
- United Nations Development Program
- National Environment Management Council (NEMC) – Tanzania
- Republic of Mozambique
- Tanzania Fisheries Research Institute (TAFIRI)
- Wildlife Conservation Society (WCS)
- World Wide Fund for Nature (WWF)
- National Environment Management Authority (NEMA) – Kenya
- Government of Norway
- UNEP Global Programme of Action (UNEP/GPA)
- Global Environment Facility (GEF)
- United Nations Environment Programme (UNEP)
- African Union Economic Commission
- Swedish International Development Cooperation Agency (SIDA)
- Kenya Marine and Fisheries Research Institute (KMFRI)
- Coast Development Authority (CDA) – Kenya
- Institute of Marine Sciences (IMS) – University of Dar es Salaam
- International Union for Conservation of Nature and Natural Resources (IUCN)
- Western Indian Ocean Marine Science Organisation (WIOMSA)
- Intergovernmental Oceanographic Commission of UNESCO (IOC-UNESCO)
- La Commission de l’océan Indien (COI)
- German Government – GIZ
- European Union (EU)
- East African Wild Life Society (EAWS)
- Coastal Oceans Research and Development – Indian Ocean (CORDIO) East Africa
- Conservation International
- Blue Ventures
- Nature Conservancy
- BirdLife International