The Malta group is one of the most despicable enemy groups in the game, so being forced to work alongside them in Dark Astoria puts a bad taste in my mouth, to say nothing of actually helping them. You do have the option to skip the missions where you actually help Malta, but you need to complete those missions if you want all the badges, so heroes are being subtly railroaded into helping Malta. What would fix this is giving players the option to kill the three Malta operatives they're supposed to rescue. The missions would play out largely the same, but at an appropriate time in the mission you get the option to kill the Malta operative in a dialog window; they're all unpowered humans, so it would make narrative sense that they'd be easily put down by an incarnate. Then, after the mission your character just tells Max the operative died in the rescue attempt.
This would also open up some other neat possibilities: taking this option could give you a point into your Rogue or Vigilante alignment bars, and if you kill all three operatives Max figures out what you've been doing, and you could throw his logic about how the two of you working together is the only way to survive right back at his face. Then, the last mission of the arc plays out with any killed operatives not granting their benefit, as if you hadn't run the missions at all, but you still get credit towards the badge for doing all the arcs in DA.