"Boss battles" in settings where they make no sense whatsoever.
On that note, dear Alpha Protocol guys: If I hit an unarmoured civilian straight in the head with my high-powered assault rifle, the expected result is "target dead, brain chunks everywhere", not "mark off some 5% of his HP".
I loved Alpha protocol. But yes bosses were horrible. Especially Brayko after he takes coke and comes at you with a knife. (music made it worth while though).
After tha, every character now invests in pistols for chain shot. Now the only boss I hate in the game is the attack chopper. It takes 5 rockets you find scattered around the place, the rockets do high damage, and its way to dmn accurate. Add guys shooting at you, and its just an annoying boss.
Darcy was pretty bad too. Having to hack a door, while enemies keep spawning and stopping your hacking.
My two favorite areas, and those are the reasons i actually replay it occasionally

The forest though, boring

I also love Mako, though the Hammerhead is more fun

The forestwas dull, but it didnt feel as bad as the fade and the deep roads. I liked the Ashes and the Awakening dungeons more. Except the one in awakening where you go through the entire dwarven city, fighting the children. Allthough thats a late dungeon iirc.
... I feel like playing DAO again, but need to restart characters, because I left them too long.
Also I loved the Mako, only issue I saw was the barren planets, but I still enjoyed it. The hammerhead was bad though, didnt really care about it, and it was very weak.