I was reading into this issue on the F800 riders forum. Looks like there is thought that the adjusting marks are not to be trusted. From the photos I have seen it looks like BMW changed the marks at some point. My 2012 only has four marks on each side. Gone are the numerous marks indicating millimeters I assume.
Looks like I need to get a motion pro alignment tool.
I suspect my bike is tracking left for some other reason. One guy on F800 riders theorizes that the F650 tracks left because of the weight of the right side rotor and caliper. My bars do fall right when the front tire is off the ground even if I let go of them when turned all the way left.
My patience is running out with BMW. I should have kept my 2011 GSA. Zero issues at 26k miles and it tracked straight as an arrow.
I suspect BMW will F'up the new waterboxer as well.