I'm gonna remove all the .3ds files i already made, and redo the milkshape part of the ships that still need rendering. That way i can compare the ship in milkshape with the one in 3ds max. However this will take some more time. I believe i'm not even halfway there, so this might take a couple of weeks. If anyone wants to help, there is a tutorial somewhere (in the first post of this thread is a link to it). My skype id is "LA-384". I'll upload the pictures afterwards.
Which reminds me.
I want to thank Linkero for his time and effort spent on trying to solve the colorization issues. After a lot of trial and error i decided to do it the hard way. I wouldn't have done it if it wasn't for Linkero.