If Stargate Command had been successful in establishing a wormhole to Destiny, the whole thing could've been chalked up to "the ends justify the means." But they weren't successful. The whole thing almost literally blew up in their faces and the situation was considered a terrible political debacle instead. If SGU had continued, I would've wanted to see the political fallout from that situation because, well, such things interest me.
I'm not a fan of "black and white" characters at all these days. That's not the way the world is. My idea of escapism is Game of Thrones on HBO and GRRM's books.