I'm sent to the back room to try to find out what he's doing, finds a message (want to find ruins instead of Jensen's work), and then, somehow, reports something completely different to Dr. Jensen (Coven).

I might, of course, have missed a message, but the only one I found there was of the "burning" kind, rather than the "any old side note" kind.

My guess is that there's something missing (and I did use click and grab on the message, without anything additional at the bottom of it).
I would have expected the message to have a second section that explains that he has some kind of lead that would send him to where he supposedly went (which I somehow read without it being in the message), although that would require Jensen's dialog to be modified slightly from complete puzzlement to at least frustration or irritation.

Lateer on:
Supplicant Ayerin's note: "course" -> "coarse"

Earlier, in another Grand Psion conversation branch: "You have peaked my interest" -> "piqued"

Further, Ayela: "I have number of issues we are dealing with." -> "We have a number of issues we are dealing with.", i.e. missing "a" and resolving singlular "I" vs plural "we".
"... destabilizing forces that that are pain points..." -> "...destabilizing forces that are causing annoying issues...". The original is slightly agrammatical, and mixes the style of "destabilizing forces" with the lower brow "pain points".
- "viscinity" -> "vicinity"

Picking up "2 Smoke grenade's" during a mission. There shouldn't be an apostrophe.
Same goes for "Healthpack's".