Both of my knees will tell you it was worth it. I think alot of it depends on how much you have ridden in the past and how well you know your comfort level. I recently got back into riding and although most of my body felt good, both legs felt like they were coming apart at the knees. After my fitting I found I was sitting about an inch too high and my body position was pretty much junk. I had it done at Bicycle Garage in Indy (with my discount for buying a new bike), and Frank was more than willing to make sure everything felt right, but he also shared lots of useful information for a new rider such as myself.
I thought I understood how to get the bike in the right position, but clearly I was way off.