I get the sneaking suspicion that the Dentons will be revealed as clones of Jensen. Also, if you recall back to the original, there were multiple cloning vats with people in them. I have a feeling that no matter how much player choice does or does not impact the game, the end result will be the same. Especially if Bob Page continues to be a pre-rendered plot character that never interacts with Jensen.
Also, I have a feeling that after this next game, Eidos will reveal that this is all a reboot of the Deus Ex franchise and that the original game didn't actually happen the way it did, thus allowing them to tamper with the storyline over the next few years. Eventually, when players are able to play as JC, they'll incorporate a co-op system into the game, enabling players to team up as JC and Paul to complete the campaign. Followed by probably two or three more JC and Paul team-up sequels, and then a return to the Invisible War-era where there will be a trilogy that ignores the ending of the original Invisible War.
A reboot. I'm fairly certain of it.