A boat cover system that can provide some level of protection to the interior of the boat when the boat is not in use, and can also provide some level of protection to the occupants of the boat when the boat is in use. The cover system may include a cover assembly that includes a support frame and a cover, where the support frame supports the cover. One or more cover supports may be provided for supporting the cover assembly. The one or more cover supports may be adapted to allow the cover assembly to be moved between a raised position and a lowered position.