Somehow, the world's various governments have been infiltrated by a race of shapeshifting aliens. Not at the level of the actual leaders, but the civil servants, the guys who put stuff into practice. However, a splinter group of these aliens have infiltrated the UN (or some other major political body, we could even do something off-the-wall like Amnesty International or Greenpeace), and put together a team that will be used to destroy an alien outpost in, say, Alaska (or somewhere else real remote). The alien link to the governments and their employers will be hidden, which I think adds a level to the story.
Obviously, there are a lot of ways it could go. Will the team find out about the aliens in the government? Will they find out about their employers? How will they react?
Obviously, this is just an idea, but I'd like to hear what people think. Even if it sucks, tell me.