Ian, I can explain how to fine tune my D300 and imagine the D700 and D3 use the same method,, someone has mentioned the bodies below the D300 do not offer this feature,, I can only talk about my D300,,
go to the wrench menu which is also the setup menu,, scroll down till you see AF Fine tune and either hit the OK button or press the multi selector dial on the right side,, this will bring up a AF fine tune off/on and you want it to be turned on,,
drop down one line to the saved value and hit OK or right click on the multi selector,, this will bring up a scale that will allow you to enter + or - values adjusting the focus of the lens mounted,,
would recommend a good line test chart (I posted one of mine below) and the camera mounted on your best tripod,, fill the frame with the test chart so the distance may be 10 to 15 feet away with that 400mm,,
make a note on a pad of the frame number and the value you entered on the scale,, on the scale enter a +3 shoot a frame, then enter a +5 shoot a frame, then enter a +8 shoot a frame and finally a + 10,, the enter a -3, shoot, -5 shoot, -8 shoot & -10 shoot,, I normally move the f stop up two positions and then repeat the process,, a couple more f stops and repeat,, as you will see the scale can go to 20 for + or - but for most lens the first 10 values normally add improved resolution,, have heard of a few that needed a 20,,
after all shots are done load them on the computer and start comparing them side by side to determine which setting +/- offered the finest resolution,, viewing up to 200%,, that +/- number can then be entered for that lens and the camera will remember it every time the lens is mounted,,
such a great tool to really fine tune every lens,,
if you need a good test chart let me know and I will e-mail you one,,
Derry