I’ve had a particularly bad experience with a Canon 50mm f/1.4 lens which has led me down the road of trying to understand the lens micro adjustment features on the new high-end Canon Cameras. Below are some references to good information if you are planning on delving into these adjustment. I ended up using the method described in the 3rd reference.
First a reference written December 2008 by
Chuck Westfall in digitaljournalist.org/issue0812/tech-tips.html. See the second question that gets answered.
Here is another one discovered by Ron Matson on photo.net
(This is the method that I ended up using)
And another which looks quite comprehensive and uses uses a displayed Moire Pattern to set the adjustment
Northlight Images article on Micro Adjustment by Keith Cooper
As an aside, I chalk my experience up to getting a bad copy of the lens combined with my inexperience to realize such before my warranty had expired. If I had dealt with the problem immediately, I would be singing the praises of Canon’s customer service. Since I decided that I was the problem and not Canon and waited 3 years until I got a full frame camera and knew better, I am now stuck with the repair bill. Alas.