First : by construction, the Nikon RF has a big main advantage over the Leica RF : if it's bang-on at infinity, then you don't have RF calibration problems at close distance. Explanation : the RF pitch throw from infinity to close-up depends on the mounted lens focal length. With the Contax-Nikon system, the double lens mount system allows the lenses themselves to drive the RF accordingly to their focal length, this doesn't rely on the correct resting position of an eccentric RF arm in the camera lens chamber, as it's the case with the Leica system. So : accurately adjust your RF with the calibrating srcew located under the camera front plate so that the RF patch in the viewfinder is dead-on while aiming the camera towards a target located at a "real" infinity (using a lupe to look at the RF patch is advised), and you're done.
Second : focus shift does exist, especially with Sonnar-designed lenses. That said, in the real life, we seldom suffer from it. What is the percentage of pictures we take which are shot wide-open at the closest focusing distance ever ? Low. Very low. Almost nil.
Third : at the closest focusing distance, with, say, a 50mm lens, the out of focus areas, below your subject, will be identical and as nice at f/2.8 as what they would be at f/1.4. Some odd esoteric concepts which are quite fashionable today, like "creamy bokeh", didn't even exist when the Nikon rangefinder cameras and lenses were made. Apertures like f/1.4 and f/2 on such a lens (Nikon even made a f/1.1) weren't designed for bokeh, they were designed for shooting in available light with the slow speeds films which were marketed back then.
Fourth : with a telephoto lens, the Nikon RF baselength is too short anyway to allow critical focusing at close-up and wide-open. The least forth and back movement of your subject will make your focus off. Want to shoot portraits with a 105mm or a 135mm lens wide open at close-up, focusing on your subject eyes ? Use something else than a rangefinder camera. Want to shoot bricks walls to look at distorsion, focus shift, vignetting, sharpness corner-to-corner ? Stop taking photos and go and listen to some music or have a nice bike ride instead.
Fifth : hope this helps. 😉