To the above spoiler: yes, I was indeed also upset at that, but the story twist in and of itself was so cool that I didn't care.
I'm very upset at the focus on the combat in PoP2, because I played the first one and enjoyed it so much because of the platforming and light puzzle solving. I though combat was a chore. An enhanced system really won't help with that, because I thought the storytelling hook of the first game was the best thing about it.
Kind of a bummer that they decided to go in this direction, even bumping up the rating of the game (which really doesn't make a lot of difference), because I think they found a great niche with the first one - and it was somewhere I liked to be.