That may be true, but my confusion is justified because I read all over the web of folk who say they had to send their lens in to be fixed because the AFMA recommended by Focal or Lensalign exceeds +/-20 points. Sounds like they should be sending their camera body in to have the auto focus mechanism fixed instead of the lens.
They should be sending in both.
The AFMA adjustment you make will not affect your manual focus if you use the ground glass of the camera viewfinder to achieve focus.
The AFMA adjustment will affect your manual focus if you are using the focus confirmation dot or some similiar visual indicator in the LED display in your camera viewfinder to achieve focus.