Molega Lake and Kejimkujik National Park are also home to the endangered Blanding's turtle which nest around the park and which is federally protected under the Species at Risk Act.

[3] The lake is also home to the Knox Conservation Lands, an area donated to the Nova Scotia Nature Trust in order to permanently preserve a section of the lakes ecosystem.

The Knox Conservation Lands are home to the only known habitat in Canada for Lachnanthes (Carolina redroot) and the first formally protected habitat of the above-mentioned eastern ribbon snake.

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