Jay, I think we're somehow equivocating, which is a diagnosis, not an insult.
One can do the calculations starting from m and f to find extension and front node to subject distance. I think we agree on that. We can't disagree. I even have a spreadsheet that contains the calculations to help me understand what I can and can't do with my macro lenses.
Where we disagree is on what people actually do in the field.
My practice is to decide what magnification I want. Format, subject, and intended composition give me m. f and m give me extension. I set extension, then move the camera-lens assembly to put the plane of best focus where I want it.
At lowish magnifications (<= 1:0.88) with 35 mm, I set the lens to the magnification I want, then teeter back and forth to focus.
With my Graphics, at relatively highish magnifications for them (~1:3 to 5:1), I set the camera up, put it on focusing rail on tripod in nearly the right place, and focus by moving it forwards/backwards on the focusing rail. Below 1:4, I put the camera in more or less the right place and then fine tune with extension; this because my focusing rail doesn't have enough travel.
With 35 mm above 1:0.88, I set magnification, sometimes with a tape measure, and the proceed as with the Graphics. 1:0.88 is the highest magnification attainable with a 105/2.8 MicroNikkor AI/AIS on PN-11 tube. It is at or perhaps a little beyond the sensible limit for shooting handheld.
If I were to start by putting the camera in a convenient place and then adjust extension to put the plane of best focus where I want it, I'm not guaranteed the magnification I want. This is why I disapprove of using AF close up, especially with mobile subjects.
If I haven't been clear, my Micro Nikkors have magnification scales. No calculations needed, just dial and go. With the Graphics, to get the magnification I want I have to calculate extension given m and f. I use a little tape measure to set it. And then I'm ready to try to set up to shoot.
What operations do you go through to set up for shooting closeup?
Cheers,
Dan