See also: The John Muir Global Network, which lists many Muir organizations, websites ,and updated information.
California
- John Muir Association: Non-profit organization helping the NPS at John Muir National Historic Site
- John Muir National Historic Site (National Park Service)
- John Muir Center at University of the Pacific
- The John Muir Papers at University of the Pacific Library: Largest collection of Muir papers, now many available for digital access.
- John Muir Geotourism Center: Based in Coulterville, California, exploring, learning, sharing, and preserving the natural environment for mental, spiritual and physical development, as exemplified in John Muir's life.
- John Muir Highway: The John Muir Highway was established to honor the legendary naturalist John Muir by developing visitor sites along the County Road J132 route of Muir's 1868 walk to Yosemite from San Francisco.
- John Muir Land Trust: Named for John Muir, this land trust that permanently protects land located near John Muir 's long-time home, throughout Alameda County and Contra Costa County in northern California, to safeguard its beautiful environment for people, animals and plants alike.
- The JMT Wilderness Conservancy: A non-profit organization formed in 2018 dedicated to "caring for the wilderness, wildlife and waters along the John Muir Trail (est. 1915) in the high Sierra Nevada of California for people to enjoy in the centuries to come."
- Yosemite Conservation Heritage Center: A National Historic Landmark museum and library with displays featuring John Muir and other early Sierra Club leaders like Marion Randall Parsons, Ansel Adams, and David Brower, as well as daily and weekly environmental education programs.
Canada
Scotland
- Friends of John Muir's Birthplace
- John Muir Birthplace Trust
- John Muir Trust: A conservation charity dedicated to protecting and enhancing wild places in the United Kingdom.
- Discover John Muir: Extensive web pages providing information, activities, Muir-related events, examples of Muir's ethos, sponsored by the John Muir Trust
- John Muir Award: The Trust's engagement initiative encourages people to connect with, enjoy, and care for wild places.
Wisconsin
- Wisconsin Friends of John Muir
- Marquette County Historical Society
- Marquette County John Muir History and Nature Route: A smart phone-friendly app guiding visitors to Muir-related sites featuring the places where Muir grew up.
Environmental Organizations Inspired by John Muir
- Restore Hetch Hetchy: An organization devoted to reclaiming the beautiful valley in Yosemite National Park that was John Muir's one great loss.
- John Muir Trust: Conservation organization in Scotland
- John Muir Project: An organization whose mission is to educate about the importance of dense mature/old forest and the ecological benefits of natural processes, such as fire, for native wildlife and overall biodiversity of our forests.
- John Muir Land Trust: Named for John Muir, this land trust that permanently protects land located near John Muir 's long-time home, throughout Alameda County and Contra Costa County in northern California, to safeguard its beautiful environment for people, animals and plants alike.