I'm more a Legiones Astartes man.
They inquisitors are a bit too SS-y for my liking. I know the whole 40k Imperium is a bit Nazi-ish, but the inquisitors are really pushing my personal limits.
As I said in other threads, I'm more into the whole Horus Heresy part of the universe, where inquisitors didn't exist yet.
Did you read the Eisenhorn and Ravenor trilogies? If not, you definitely should, it might give you a different perspective on the Inquisition. I really like that dilemma every inquisitor faces - just to how extent can they study and use Chaos to defeat Chaos before they become corrupted?