See
here, once it's okayed onto Teaspoon. The first two sections of Part Two. And while not all of this happens yet, in Part Two, UNIT receive a visit from a Torchwood agent, and suddenly Dr Webber's losing his temper, the Captain's giving unlikely orders, Tilly's a canary, and Sergeant Kennedy is a murderer. It's no wonder the Colonel's confused.
(The rest of this section shouldn't be too long in coming, so I may as well say that now...)
Edit: The chapters posted so far are up on Teaspoon (but the rest of Pt Two is yet to come. I did say that...)