The marine component of the Biosphere Foundation programme focuses on coral reef conservation and protection, including reef renewal programmes and training in coral husbandry. This includes providing students with research experience aboard the foundation's research ships.

Protect Ningaloo is a grassroots initiative with the subtitle Save Exmouth. Ningaloo Reef off the coast of Western Australia (some 1200 kms north of Perth) needs the support of its nursery system in Exmouth Gulf, an ecosystem which has been under threat of industrialisation. While the Ningaloo Coast is a World Heritage site (as of 2011), the Exmouth Gulf itself is not, leaving it open to industrial proposals. Industrial corporations have proposed a new marine port in the area as well as steel pipelines to cater for offshore gasfields. In 2021 the WA government announced that it will protect Exmouth Gulf on the Ningaloo Coast by implementing a variety of conservation measures, including the formation of new conservation reserves in areas where major industrial developments were proposed. Nevertheless, the Protect Ningaloo continues with its campaign to ensure that the reef and gulf are fully protected against development. Ningaloo Reef is the world's largest fringing reef, and one of the longest near-shore reef systems in the world, which stretches 300km from Carnarvon's Red Bluff to the Muiron Islands in the north and Exmouth Gulf's Bundegi Beach in the east. Encompassing the Ningaloo Marine Park, the area is known for its corals, and marine life such as the whale shark, humpback whales, manta rays and turtles, amongst many others.

Founded in 1989 by the owners of Anthony's Key Resort, the Institute's purpose is to preserve Roatan's natural resources through education and research. The main focus of their educational programmes is on dolphins, and coral reefs, within the tropical marine ecosystems where they are based. Internships and short-term course, including dolphin encounters.

Formerly Global Wildlife Conservation, Re:wild aims to protect wildlife by protecting and restoring biodiversity in every sphere, thereby protecting the planet from 'the triple threat of climate change, extinction and pandemics. This includes the ecosystems which impact on ocean life, such as corals reefs, mangroves, seagrasses, amongst others.

The RSEC is an NGO that carries out coral reef analysis and conservation in the Pink Sea. Working out of Dahab, a Bedouin city, it is possible to dive and learn to free dive in its 90-metre sinkhole referred to as on the Blue Gap. RSEC run marine biology programs, in addition to coaching “ecodivers” in reef surveying and monitoring methods to assist in scientific research. RSEC Dahab offers courses, lectures and conservation volunteering about Red Sea Coral Reefs

REE.PH operates under the corporate entity of the Coral Triangle Conservancy Inc., with the objective 'to establish networks of No-Take, Enforced, Old, Large, Isolated (NEOLI) marine sanctuaries, to expand public awareness of unsustainable commercial fishing practices, and to rehabilitate coral reefs that have been destroyed by a combination of destructive human activities.' This includes fish and coral nurseries that increase food supply and insure biodiversity, and sustainable initiatives involving all the stakeholders including local communities and scientists. The marine sanctuaries 'Lifeboat Projects' are strategically located around the Philippines.

The Reef Ball Foundation is an international non-profit foundation whose mission is to rehabilitate and protect our world's ocean ecosystems through the development and use of ecologically sound-designed reefs and related systems. Their technology, Reef Balls, effectively create sustainable aquatic habitat and achieve it in a safe, long term, environmentally compatible way, by mimicking natural reefs. They are made with special concrete, with a pH similar to sea water, assures compatibility with marine environments and enhances its attractiveness to colonizing organisms.

Reef Check Australia is an environmental charity dedicated to providing ways for the community to better understand, appreciate and protect oceans and marine environments via citizen science. They protect reefs and oceans by engaging the Australian community in reef monitoring, education and conservation.

A volunteer, community-based monitoring mechanism operating in more than 60 countries, Reef Check is designed to measure and maintain the health of coral reefs. The organization has coordinators, teams, and EcoDiver training facilities in many countries around the world. Since the first Reef Check coral reef monitoring survey in 1997, almost 10,000 surveys have been completed by Reef Check EcoDivers in over 95 countries and territories.

Reef Check Malaysia works for sustainable management of coral reefs in Malaysia, bringing together stakeholders to collaborate on coral reef monitoring, management, research and conservation, and advocacy. They monitor the health of coral reefs at over 200 sites every year. They are based on three islands in Malaysia working on community projects to conserve the marine resources: Tioman Island, Mantanani Island, Mersing group of islands.

The Reef Citizen Science Alliance is an Australian network of 13 members working with partners to foster collaboration, capacity building, advancement and action for citizen science that benefits Queensland's reefs. Citizen science involves community participation and collaboration in scientific research.

ReefCI is a non-profit marine conservation organizations Belize, working on protecting coral reefs and oceans since 2006. This includes engaging volunteers and all interested parties in taking an active role in directly protecting and conserving ocean ecosystems.