It took a while for the captain to get everything back under control, Cole was willing to give him the time he needed. After all, it was not everyday your ship gets hijacked by the pirate prisoners you're ferrying, and then an uber powerful handsome rogue comes along to save your ass. You would worship the ground he walks on, and at the same fear him in equal measure.
In this case it seems the fear was the most prevalent emotion. It was making Cole uncomfortable to say the least, it did not matter where he turned or he looked at. The fear in their eyes and bodies could not be hidden, it was weird, Cole was sure the only fight that they had witnessed should be the ones in the prion levels of the ship. Even then he hadn't really brought out the big guns.