Here's a pic. of my floor drains. They have a ball inside to prevent water from coming up onto the deck. I get zero water on the deck.
But if you want to do it right, "I didnt", you might want to knotch out the deck a bit. The drain has a lip, so water will sit around the drain, if not knotched out. The lip is only about 1/8 high.
BUT whatever you do, you MUST order the drain with a 90 degree, a 45 wont work because of teh height of the floor and hull. The 45 will hit the hull.