Yeah load times are a pain especially in the really difficult parts such as the bosses or...
when the helicopter (thing) goes down and you have the option to save Malik. Parts like these are excruiatingly difficult, especially if you're going for non-lethal.
My biggest complain however is the endings. I'm not sure how many people have made it to the end of the game and really have simmilar concerns but I'm really disapointed by them. Each of the main three seems just like another way to ruin mankind, and the decient story in turn, under the pretense of doing something good. For one they seemed rushed and simply incomplete, in this respect I remember Yhatzee saying something about how it was best to spend the most effort on the beginning and the end because the middle portions don't matter as much in the end.
To stop dancing around the matter and get into the specifics I though that...
the main three choices greatly contradicted the vibe of the original's canonical ending of letting the world free of the choices made by people 'above' them. Each one has ups and downs, as they should, but to me they all come off as just not feeling right.
The last ending, the blow up Hyron ending seems to me the most likley ending to be considered canonical but even as is isn't particularly good, or cheery. I can undertand sacrificng yourself because of what you belive in but when you're killing several hundred other people in the process, many of which who have been naratively degraded into their politcal views and all of which have no say in the matter, it's just stupid. To me it also seems like in this ending Adam would also have significant regrets. Noone would ever know what happened in the end (though that is the point) and the justification behind it (he could just send a message saying that it would be better for the world to decide for themselves), he never got to say a fairwell to anyone, including Megan, and the members of the Illuminati were never discovered. It's increadibly stupid and disapointing to me because all of those issues could be fixed with just 10 lines of dialogue between Adam and the AI (forget her name at the moment) so the AI could get the general message out to the public and specific persons. After all the AI didn't get destroyed, it's still in Montreal!
That just really bugged me and is really dampening my experience on an otherwise, great game.