Bug: Custom Ship designs from previous games lose special abilities(trade, colony) after you begin a new game. Even though the correct modules are visible on the design, the ship doesn't have the corresponding special abilities.

How to Recreate error: Create a Custom Race, Create a Colony ship(Altarian scheme) with 2 Hyperdrives(or enhanced Hyper Drives) and either a sensor or life support. Name it Colony Ship MKII and save the design. Create a New game and open the shipyard, the Colony Ship MKII will still be available but it will have lost it's colony ability.