EELIS - Eesti Nature Information System
- A national database, containing information about protected areas, nature monuments and species. [Estonian, English]
- http://eelis.ic.envir.ee/

Past pollution and its remediation in Estonia
- Report on pollution and the causes thereof during the Soviet occupation.
- http://www.geo.lt/baltica/B17(2)/71-78.pdf

Estonian Ornithological Society
- Supports the conservation, study, and propagation of Estonian birds. Includes list of Estonian birds, important bird areas, and the journal Hirundo. [Estonian, English, Russian]
- http://www.eoy.ee/

The Eagle Club
- A non-governmental organization for research and protection of eagles and black storks in Estonia. [Estonian, English, Russian]
- http://www.kotkas.ee/

Estonian Academy of Sciences
- Association of scientists and scholars. [Estonian, English]
- http://www.akadeemia.ee/

Estonian Fund for Nature (ELF)
- Non-profit organization supporting conservation, sustainable development, and increased environmental awareness. Includes information about the country's nature and the organization's legal cases. [Estonian, English, Russian]
- http://www.elfond.ee/

Estonian Academy of Publishers
- Scientific journals and publications. [Estonian, English]
- http://www.kirj.ee/

Geological Survey of Estonia
- Information on geological sites, mineral resources, groundwater, services and maps. [Estonian, English, Russian]
- http://www.egk.ee/

Estonian Orchids
- Site for the Estonian Orchid Protection Club, dedicated to preserving native orchids. Features list of species with photos and descriptions, and their distribution in Estonia.
- http://www.orhidee.ee/