The lowest nut on the top of the fork is not something you should touch unless you are replacing the shock fluid. The next one up from the bottom is the pre-load adjustment. Some adjust it for comfort but it is really designed to adjust the suspension for your weight. The knob at the top is the Rebound Dampening Force adjustment. On the lower edge of the fork (near the wheel and brake disk) is the Compression Dampening Force adjustment. To set them to the factory settings:
Front Pre-Load: Turn clockwise until all the way down then back so that 3 lines show. Use to set your Sag.
Front Rebound: Turn it clockwise all the way in (until the clicking stops), then back out (counter clockwise) 12 clicks. Counter clockwise is harder, clockwise is softer.
Front Compression: Turn the screw (not the ring around the screw!) clockwise until the clicks stop, then counter clockwise 12 clicks. Counter clockwise is harder, clockwise is softer.
Do the same for both shocks. You should set both to the same settings.
As for how to set it after that it depends on what is comfortable to you and how you ride. If you take the corners hard then you're going to want to lessen the compression (turn the lower screw counter clockwise). And on and on and on. Here is a useful post from another site which does an excellent job of describing all of the possible adjustments:
https://www.gsxr.com/showthread.php?t=10012 . Don't pay any attention to where they say the adjustments are or what the setting should be (it's not an FJR site and our forks are different). Do pay attention to what they say each does and when you should make changes to any of them. I listed how to make changes above.
Also see here:
https://www.onthethrottle.com/howto/suspension-set-up-on-a-suzuki-gsx-r600/
Ignore the Sag setting for the rear. We only have "Soft" or "Hard" and no fine tuning. If you are a heavy guy then go with "Hard".