I have a similar problem, I created a custom race that uses the human ships, played through it creating all my own ships. I started another game and this time played as the humans, they use human ships but none of my ships are showing up. So do I have to create new ships for every single race even if they use the human ships? This seems to be a bad idea or a bug. I fully understand that if I play a race that uses differnet hulls I will need to build ships, but if I create human ships they should show up when I play a race that uses human ships.