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The goals of this project are to restore large patches of tidal marsh that support a wide variety of fish, wildlife and plants, including special status mammals and water birds - specifically the salt marsh harvest mouse, California Clapper Rail, and Black Rail, endangered fish - specifically the Delta smelt, Sacramento splittail, steelhead trout and Chinook salmon, and aquatic animals.
Aside from the large mammals including mountain lions, coyotes, and bobcats (the last California grizzly bear in the Santa Ana Mountains was shot near Trabuco Canyon) the creek was once a productive habitat for steelhead trout.
Four special-status animal species - California red-legged frog (Rana draytonii), coho salmon, steelhead trout, and tidewater goby are the focus of a June, 2010 Watershed Management Plan.
In 1898 John Otterbein Snyder collected steelhead trout (then Salmo irideus Gibbons) specimens in Campbell Creek (now Saratoga Creek, a tributary of San Tomas Aquino Creek).
The Stein River contains Dolly Varden char, rainbow trout and Rocky Mountain whitefish, as well as steelhead trout, coho, pink and chinook salmon.