Nobody is looking at this from the point of view of the civilians. Say I'm Joe Regular on board the Destiny. Who do I trust with MY LIFE? There's the military who have the ability to fight for me if the situation comes down to it but who CAN'T operate the ship. Know nothing about the ship and based on a decision made my their commanding officer, could very well get me killed.
On the other hand is Rush who knows most about the ship but can't be trusted because of his own hidden motives. However that makes it's highly unlikely Rush to ever do something that makes Destiny go haywire and kill everybody on board since that will also get HIM killed.
What shocked me about this particular episode is that nobody realised that BOTH of the sides are right. So far we had Young abandoning Rush on a deserted planet which was a bad decision. Sure you can find reasons for and against, but overall it left the people on board feeling uneasy about their leader. Camille and Rush instigated a coup d'etat which was also a bad idea because civilians are not prepared to defeat military forces.
Both of these courses of action resulted in disastrous consequences. It's further proof, that was unneeded that these people need to work together. But nobody pointed that out. Not even freaking TJ who a couple of episodes wanted to act as a councelor for the rest of the people. Instead of realizing that the very act of people with no military training would pick up a gun out of fear means that Young's leadership is faulty, she chose to shut down completely.
"You are wrong. Young will resume leadership and that's that."
F**k you in essence.
I say side with aliens at this point.