I'm sure he'll pop up again at some point. He tends to do that.
[A little dry. He's had some issues with the Doctor not being around when he really, really could have done with him.]
And yeah, pretty much. The Time Agency is pretty authoritarian. You really don't want to mess with them.
[If Torchwood has a tendency to just lock up creatures who pose a threat to the human race and throw away the key - well. Jack had to have got that attitude from somewhere.]