Sure, it hurts the pride of the folks at Obsidian, both the company and the individuals that work for them. I personally wouldn't be too happy if I were in the same situation. Having said that, so what if Team-Gizka is famous? Obsidian can put it's hurt pride to the side knowing that even though they are not generating any new ways to make money off of the game, Team-Gizka is free publicity enough to posssibly increase KOTOR2 sales. To top that off, Team-Gizka isn't even depriving Obsidian of any profits, much less TG profiting for themselves.
I'm not deriding your statements, though. They are still valid, I just thought I would toss in my two cents.