Please see the most recent updates in the "Where did the .com name go?" thread. Posts number 16 and 17.
You're on the right track I believe and the one I was following in an attempt to correct the problem. Both the texture and the alpha have solid black backgrounds so my assumption was that by manipulating one or the other I could get the correct effect. That didn't happen. What I'm afraid may be going on here is that those areas are actually controlled by the mdl file and I've been that route before. . .it's strictly a hit-n'-miss proposition. You could have 50 LOD's and no way of knowing which one effects which part of the airplane, so you just have to start at the top (or bottom) and work your way through each material setting.My guess on this, is that the logo textures were assigned alphas that would ask as transparency. For some reason, they are over-riding the assigned materiel for the main skin. I don't have that, so hard to say...just a guess.
Joseph
I had been using MDLMatXXI have the feeling it's stuck in the .mdl also.
I haven't been able to properly save an flying mdl edited in ModelconverterX...are you using something else?
Joseph