I played it once and like many others, thought wtf, how is this so popular? After reading a couple of reviews, I decided to try it again, this time making different choices and winding up with the other ending. If you really think about your answers and make conscious choices rather than brainlessly mashing a couple buttons like so many other games, you'll see the point the author is trying to illustrate, the difference between obedience and disobedience.
Some of the levels were so frustrating it was nice that the end result was knocking out a ref with a soccer ball. Timing is really key. If you do another game, since so many people seem to be complaining about the aiming line, why not just make an option to toggle it on or off?
I tried going through being the "Friendly Robot", but after 120 minutes I got pissed and started killing everything. Got all the other badges, though. It's a fun game, just as enjoyable as Robot Wants Kitty.
Interesting improvements. I like the story mode. On a random note, twice I found that the pastor was a hired assassin. Makes me nervous to go back to church...
Lots of little inconsistencies with clues, that's already been said. And as for achievements, "Successfully solve 25 cases in a row." You're really expecting people to love this game...