Both tools require a certain amount of user interaction and common sense to use. There is no one tool out there that will simply tell you the perfect reforge option for every fight at any given moment in time. I personally prefer shadowcraft, been using it since it was just a spreadsheet and I feel most comfortable using it. I know others that use AMR for thier rogue and it works fine for them. If I wasn't such a lazy bastard, I would use SIMC in conjunction with ShC to map out the best stat options from fight to fight, but I am indeed a lazy bastard.
ive started to use ShC now it actually is pritty good.. i think i just preferred AMR because it actually did the reforges for me, ye im lazy like that! haha
(I think its about time blizzard nerfed reforge costs)