Fantastic horror experience + some suggestions!

[Sexbad]

I actually sort of do agree with the points system, but it shouldn't have any visible numbers to it. I have an idea for this:
Plenty of the puzzles and other situations in the game have multiple solutions, and how you get through them could lead to improvements on certain parts of your character. It probably wouldn't work with Amnesia because the game is about you going insane, but if something they made was built more like System Shock 2, there could be character building in categories such as lockpicking or linguistics, as OP mentioned.