There's a big disadvantage to the 3 link and that's it still retains a track bar and it's not triangulated. There is something to be said about redundancy and if you tear off a control arm bracket as I have on more than one occasion, you still have another to get you by. If you tear off an RK bracket, you are done - trust me, I just saw this happen on Saturday.
In spite of what you choose to believe, the RK 3 link setup will not give you any more flex than the shocks you run will allow. As far as it driving "better than stock" goes, ride quality is 100% subjective and determined more by spring rate and shocks than how many links it has.
A lot of good a spare control arm will do you if you tear off the mount on top of the axle. Just saw this happen on the Rubicon last week to one of the guys attending the JKX. When it broke, it took out his rear drive shaft, rotated his axle up and jammed it up between the gas tank. 3 winches later, a welder and a lot of work, we finally got him trail fixed enough to drag him off the trail. We have it all on video.