My information on boating regulations comes from the Laurel, Montana “Outlook.”
In order to protect the waters of Yellowstone, all motorized and non-motorized watercraft entering the park’s lakes must now pass an Aquatic Invasive Species (AIS) inspection on their boats as part of the watercraft permitting process.
National Park Service staff will also conduct daily required inspections, seven days per week, for all boats that launch from Bridge Bay, Grant Village and Lewis Lake boat ramps.
Information on boating and boat permitting in Yellowstone can be found at http://www.nps.gov/yell/planyourvisit/boating.htm.
Information on AIS can be found at http://www.nps.gov/yell/planyourvisit/fishingexotics.htm.
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And from the National Park Service:
The park has updated its fishing regulations for the season which began on Saturday, May 25, with the goal of aiding the park’s Native Fish Conservation Plan. Native fish found in Yellowstone waters include cutthroat trout, mountain whitefish, and Arctic grayling; all of these must be released unharmed when caught. Anglers are reminded that they may use only barbless artificial flies and lures and lead-free sinkers when fishing in the park.
To help protect native fish species, the limit on non-native fish caught in the park’s Native Trout Conservation Area has been eliminated. This includes all park waters except the Madison and Firehole rivers, the Gibbon River below Gibbon Falls, and Lewis and Shoshone lakes.
Rainbow or brook trout caught in the Lamar River drainage must be harvested in order to protect native cutthroat trout in the headwater reaches of the drainage. This includes Slough and Soda Butte Creeks. Anglers are also reminded that all lake trout caught in Yellowstone Lake must be killed to help cutthroat trout restoration efforts.