Wouldn't this be incorrectly folding in the taper of the barrel, and thus making both the scope and bore center-line point up?I leveled on the barrel. When it was level, I check the scope to see if it was level just by setting my level on the turret cover (see pics). the scope showed full bubble off when the barrel was running level. I know this was probably not the best method but my son has borrowed my little scope levels.
I'm still feeling like we haven't gotten to the bottom of the problem, and given the magnitude that it should be possible to find. Is the top of the reciever just perfectly straight and round? If so, measuring to where the bottom of the scope sits on each base should help matters along.
There is a very similar rifle on Weatherby's site:
http://www.weatherby.com/products/rifles/vanguard/vanguardr-leupold-package.html
so I bet this is their problem and should be returned to them post haste