If you are brave enough to follow the God mode, you can change the config.cfg file further.

cfg_COMMAND_POINTS_MULTIPLIER_FOR_DECOMMISSIONING_SHIP = 0.5

This command changes the amount of Command Points you get back for selling the ship. As you can see, it is currently set so that you get back half the command points you originally paid for a ship. By changing the .5 to, say, 2.0, you can get twice the money back. I have tried it up to 5.0, and it seems to work fine.