It's pretty simple really. All these fast lenses have a common attribute called focus shift and the simplest explanation is that the point of correct focus shifts as you stop the lens down. The micro-adjust AF controls in all of cameras are amazingly simple and stupid. They are all made to do one calculation per lens. But if you calibrate for the wide open setting (f1.4) which is the stop you paid all that hard earned money for the lens system's focus point will shift as you stop down. The setting at f2.8 when used on my Sony a99 is three or four points different than the f1.4 stop. In theory you could test and divine a calibration setting for each f-stop but there's no way to load more than one setting into the camera for each lens.
If you were amazingly compulsive you could calibrate all the critical stops and third stops and make a chart. Then when you grab your camera to shoot you can check your f-stop, consult your data and set the correct number of every f-stop. You'd probably only need to do the stops from wide open to about f4 because at that setting depth of field masks the errors. Mirrorless cameras set focus at the shooting aperture for their contrast detection AF so they tend to be much, much more accurate. I wonder if there is a downside to the inclusion of phase detection AF points on a sensor as relates to focusing point accuracy.
Why do I bring this up? Because I spend a few quality hours yesterday recalibrating all of my Alpha lenses for proper AF performance and the lenses with gaussian designs and modified Planar designs all exhibited this sort of obvious focus shift. My strategy for the 50mm 1.4 Sigma lens is to set the highest focusing accuracy at the most commonly used f-stop, which for me is f2..5. I actually fudged and set my for 2.8 because I tend to shoot a lot of stuff at f4. Now that I've re-calibrated the lens is much sharper at f4 than my previous experiences with it.
The nice thing about the Sony a99 camera is the ability to do magnified live view focus (with focus peaking) with manual focus lenses. With a quick magnification to 8x or higher it's easy to nail focus at any of the wider f-stops with a high degree of accuracy.
The focus shift is not a fault of one lens company or another, it's inherent in the type of optical design typically used in high speed lenses.
Just a head's up for people who are interested in micro-AF adjusting. You might start out by considering which of the fast apertures on your lens you use the most and start there. By the time you get to f4 you really are mostly stymied by the DOF of the lens. For my money, unless you consistently shoot wide open you might think of optimizing for the ultimate sharpness at two stops down.
You may find that your lenses are a lot sharper than they get credit for. Panasonic and Olympus shooters? This is one thing you just don't have to worry about.