you've got file paths in the ship py files saying FCsoverign. Shouldn't they all be steamrunner?
Either way I think I'll run the beta and send it to you for final assembly. For one thing I don't use the high folder and not really sure exactly how your stuff is set up.
NEED THE TACTICAL ICON!!!!!! 
Yeah there's a reason I use a High Folder...it's because I like my things to look neat

and not strung everywhere just in case I need to use NifSkope for the ship model file ;)
EDIT: Oh and yes, they're supposed to read FCSteamrunner not FCSovereign! LOL I used the FC Sovereign ship file as my basis

EDIT 2: If I had used the FCAppalachia Ship File I wouldn't have this problem DAMNIT

EDIT 3: And if this doesn't work it's because the "Multiplayer.SpeciesToShip" in the ships file is reading STEAMRUNNER. I kept this in mind because I know a lot of people have the latest KM install (I have it installed twice, one as my mod testing grounds and the other well just regular

)...if you don't have this, change these following codes in the ship files of each ship!
"Species": Multiplayer.SpeciesToShip.STEAMRUNNERto
"Species": Multiplayer.SpeciesToShip.SOVEREIGNOnce you do that it should work!