I'm here to +1 the latter part of Charles' comment. While I don't necessarily agree they're superfluous, I do agree that with the developments the Malnosso Organization has seen in the last three years, the Rogue Faction is making things more confusing than they have to be. Heck, according to IC conversations with Davis and CJ, they're so secret that not even the non-Rogues in the organization know they exist! It's getting just a little complicated there.

As such, I like Charles' suggestion of a series of missions to root them out. Like he said, it could be a great victory for Luceti and would make for a good plot spanning the course of several months. I'll develop the idea step further too, to present a feasible way for kidnappings to continue for those who want them.

1. The Rogue Faction, over the course of several missions, are exposed and most members are taken into custody and so on, but...

2. Not all of them. Some escape, and they take the suped-up droids with brains (since it's been a year and a half with no word on them, last I checked) with them to team up with an ally on the outside.

2b. Said ally could be anyone, for the record. Zompano makes the most sense to me, given the strong ties he's hinted to have with the Rogues. The main purpose though is to get them separated from the Malnosso.

3. Kidnappings can now be conducted by the Brain Droids instead of the run-of-the-mill ones the Malnosso still have. They could be powerful enough to cover for the disadvantage the Rogue scientists have by being on the outside now, but few in number enough that they're not a constant threat to everyone.

Regardless of the above, I think something settling the issue with the Rogues should happen. As another benefit, it could bring a conclusion to the NPC Molly's story, now that there's no one to play her. Her uncle was revealed a year ago to be the leader of the Rogues. A conflict with them could bring her back into the picture, either to remove her from the enclosure or wrap up her story in some other way.