There are numerous lakes and ponds throughout the park and preserve besides the 40 mile, 990 feet deep Lake Clark. The larger lakes are; Telaquana, Two, Turquoise, Twin, Portage, Fishtrap, Caribou, Lachbuna, Otter, Snipe, Kijik, Lower Tazimina, Upper Tazimina, Kontrashibuna, Hickerson, Crescent, Pickeral, and Summit.
Lake Clark is also the sixth largest lake within Alaska.
Maine ocean islands provide the only nesting sites for Atlantic puffins in the United States. Eastern Egg Rock in the midcoast region, Seal Island and Matinicus Rock at the mouth of Penobscot Bay, and Machias Seal Island and Petit Manan Island off the downeast coast provide habitat for more than 4,000 puffins each summer.