I've had the same problem. It seems that when you duplicate a part and reverse its shape (left to right to achieve model symmetry etc.) the faces are changed. If you read the milkshape manual it says that a faces created in a conterclockwise manner will face out and clockwise faces in. So by duplicating the and reversing the part you are changing the way the faces are created.
To make a long story short the model looks weird in milkshape because some of the faces are facing inward and appear black or missing. There are 2 ways you can use to fix this.
1. [Using milkshape Select each face then go to FACE...reverse vertex order. This will make the faces point out instead of in. Can be tedious unless you've setup groups which is unlikely since you imported the model not built it in milkShape.
2 [using metasequoiaLE In the command menu click "select" then in the popup box click "joined face" when you click on the face thats reversed all or most of the faces on that part will be selected. You can then go to "Selected" up top then "invert" and all of the faces are facing out. Repeat for each reversed area. Its important to rotate the model a lot to see the missing faces because in Meta reversed faces are invisible unless to look at them from the right angle.
I use metasequoia to create my parts then DOGA-L3 to put them together. I am just learning about Milkshape. Unfortunately my computer is screwy and crrashes when I use the cmp plugin
I'll have my new machine built this weekend so hopefully I can move forward. Oh and I also have Zero clues about texturing
I'm currently working on two models; The borderworld banshee from WC:prophesy and the Starviper from shadows of the empire.
Progress is painfully slow.
Funny...Two weeks ago I never even attempted modeling. Then I came across Leonhart's "name my ships" post and was inspired. THANKS LEONHART
I hope this helped in some way.
Hmmmmm before Lancers I never posted in a forum either...... Damn this freelancer!
Splunge