Someone can correct me if I am wrong since I only have experiences with my VLX.
There is an idle screw that you can be adjusted easily and on my bike looks like a little black knob near the choke. Someone mentioned in another thread how to check rpm's for adjusting it, but I think most people just listen to how the bike sounds when adjusting it.
The pilot screw is for the air/fuel mixture where you need to drill out the caps and then worry about the number of turns of the screw.
Does your bike have a dual carb? This is just from stuff that I have read on this forum, but could the idle jet for the rear cylinder be partially plugged?
2005 Honda VTX 1300R