Great game. Reminds me a lot of the old Shadow Hearts games. I agree that the random encounters were tougher than the boss, though that's partly because I'm more willing to use skills and items on a boss.
If you don't have enough plating to handle the initial surge of heat when changing something, it will occasionally blow up. This occurs even if you have enough outlets and vents to take care of the heat otherwise.
Also, if you overheat too many times, you can actually end up with negative heat vented. This gives you negative Exotic Particles gained with next prestige. I'm not sure if that was intentional, but it certainly gives us a good reason to be more careful.
@Dolohov You can build up that 200k difference by consistently starting Skill tiers before Physical tiers. The time it takes to change screens and add that one guy accounts for a lot of levels, cumulatively.
Would it be difficult to change the conquest message for Grey Isles? Instead of "one step closer to world conquest," it could say "We have conquered the world." Again, if it wouldn't be too difficult, maybe you could add a number of times. "We have now conquered the world [7] time(s)!"
 "AntiVillain (-OneShot-)"){kind=icon}
 "Swarm Simulator"){kind=icon}
 "Reactor Incremental"){kind=icon}
 "Idling to Rule the Gods"){kind=icon}
 "Idle Conquest"){kind=icon}