The stock cooler is one of the best bets for coolings' sake. (Just be sure to apply AS5 though). I also had the VF-900 and it wasn't that bad, until it ate the AS5 I had between it and the GPU. (Yes, it does "eat" AS5. I applied a good amount on when I installed, played with it for about a month, then checked it due to wierd temps and crashings. There was hardly any left. I couldn't believe it)
That and the heat coming from it was pretty substantial to have lingering around a case like nitro said. I had a window in my TJ-06, and it sometimes made en ever so slight "pop" due to the built up heat expelling in between the plastic glass and steal side panels (it was bolted on). In addition, I once took of the side panel right off after I got done playing Oblivion, and felt the heat emanating from the inside of my case.
Instead of wasting time with another so-so cooler that would probably only offer minor improvement, I went water cooling and have loved it ever since. Not everyone wants to put out the cash for that, and I understand why.
If quietness is what you are really looking for along with decent cooling, the Thermalright is probably the best bet. I think Bull Dog has one and has gotten some very impressive results with it and he could probably show you some other places that have enjoyed it.