Teeth, I think your missing the point about the "Ship Names".
As stated in the Read Me you either:
1. Back up your own CustomShipLoadOut.txt and copy the entire TeamTNG CustomShipLoadOut file. (recommended)
or...
2. Match the names of what ever ships you have in your CustomLoadOut.txt to the list of the ships on the read me.
Another words just "save" your own ships as the ship names listed when you "refit".
The list of those ship names and hull classes in the read me are for referance.
You should not be adding them to any files.