Cool. Awaiting v3 then. I found that my issue with the arcadia was solved by extracting the maps from the MaT file, that worked.
Though, the Ursa had some strange texture alignment issues that I'm still sorting out, and one other ship (I think the Herc) had a real shine map problem along with one other ship. As well as a vasudan cargo container.
And I also noticed that

of the shivan vessels that had moving glowmaps don't any more. (Though, the ?Astaroth? I think? The thing that looks like it might actually be a cylon mark 4 or 5 something) looks really nifty without any red to it.
I'm going to test more thouroughly the model files against the originals.
Yeah, I could just wait for 3 instead of playing with 1, but I'm a little on the bored side and now I actually _have_ time like I promised I would have.

**Edit: Now that I'm home, the MaT models 'n maps issues I had were with the Ursa being misaligned to the model and the Medusa and Aeolus having shine map problems, with the Aeolus having as well a black "missing texture" looking issue, only it's not really missing because you can't see through the model, it's just pitch black.
The Medusa and Aeolus have the shine map problem in 3.6.8 Zeta as well, AFAIR.