I have just completed a model that I just could'nt get the tangent colors to match. No matter which way you orientate them some of the polygons don't have the the colors in them that others do, unless I made them all black. Which after many hours of almost completely fruitless research, I'm pretty sure your not supposed to do. They should be either green, blue or red. Now after hours and hours of trying to get my model all 1 color or close to it with gradual shifts in color, a flow on, so to speak. I just gave up in the end, I was just chasing my tail ending up back where I started, so finished off the model converted it put in the game and tried to pick the miss match's.
Well I might be getting a bit old but I can't see any anomilies. The only thing I could find was a bit of seam striaght up the middle which I'm pretty sure is a result of symtrizing.

here's the color map in softimage

Although my tangents are obviously not real good. I can't see anything that really wrecks the model. So I am sort of thinking that the polygon colors don't have to be that well matched. I could be wrong but I think its alright as long as you have red, green or blue in the apropriate places and even then it doesn't matter that much.
One thing I wish, as far as SoftImage is concerned, is that there was more info about it in the user guide, tutorials or anywhere. I can't seem to find anything that really explains what exactly is needed.
Edit; Oh! I forgot to mention. @TobyWahn_Kenobi, This is a long shot but could your lighting problem happen if you had your Aura & Above nulls about face / upside down?