All I know is what has been stated publicly, of course, and I am not some fanatical Stardock "fanboy". I like Brad's games, and Paul & Fred's games equally... and there are very few computer game designers that I actually admire.
I almost couldn't believe that Stardock would simply not use the original aliens just out of an understanding and respect for someone else's "ownership" of a universe they created regardless of what the contracts actually say. I can't imagine that Stardock would have bought these rights if they did not give them the right to make Star Control games, obviously. Most business people would simply say "I bought it, I own it now, I can do what I want with it."
So, although I only know bits and pieces of this story that have been made public... I am as confused as Brad seems too be. I would think that Paul & Fred would love Stardock for their stance on this. I can't imagine what they are thinking. From what I see, which admittedly isn't much, Stardock is being AMAZING in their respect for Paul & Fred's work and in leaving them with their own universe they created even though they don't have too.
This really is very confusing too me.