-I generally like a medium soft seat that is wide enough to sit on. Enduro Engineering has a nice wider replacement seat for the 04-05 KTMs.
-I also tend to like a slightly taller handlebar setup. I like to use minibike bars on my race bikes. If using a 7/8's handlebar , I like the Renthal YZ80 bend. Slightly straight bend and about 7 mm taller than CR-HI. You also don't have to trim this bar for the woods. It is just under 29" wide. If using the Fat bar setup that is popular now I find the Moose Flex Series Mini bend bar is very nice. Similar to the YZ80 bend but is 29 1/2" wide. Again no cutting down to size.
-I prefer the Moose aluminum hand guards. Sometimes I add the plastic deflectors to them. I set them up straight forward when you are sitting on the bike.
I adjust the levers a couple degrees down from straight forward. Adjust the levers to move if you hit them hard with the palm of your hand. I usually trim the balls off and make the levers a 3 finger on the clutch and a 2-3 finger on the brake.
-I adjust my shifter slightly above level with the foot peg. That way you never have to point your toe down to shift. Ride with your toes pointed down and you chance breaking your toes or foot. You may have to shift by raising your leg when sitting way forward.
-Adjust your rear break lever to have about 3/4 to 1" of play.
-Adjust to level with foot peg. I usually add a stiffer return spring to the lever to help prevent me from dragging the break in tight woods. The first time you use it it feels funny but you quickly adapt.
-Use a High temp brake fluid like Maxima or Motul Racing. I also prefer using Moose Brake pads. These are made by DP Brakes for Moose. The difference is that the Moose pads have double the ceramics on the back to prevent heat transfer and helps keep the brake fluid from boiling. They work well and last long also.
-I also set my suspension up very light but controlled. I don't want the suspension to "Baby Buggy".
-I like Pirelli tires with Bridgestone HD tubes. I use the MT83/Scorpion Pro front tire in the wet and the MT16 when dry. I always run the MT16 rears and adjust air pressure for the situation.
-If wet I will run 11 PSI ft and 10 PSI rear. If dry I run 12 Psi ft and rear. I like the MT16 rear tire for the control it gives me in the woods. It allows me to slide my rear tire with total control. I can brake slide a tight turn and roost out . I find I couldn't do this using a tire like the Michelin S12. The S12 just got too much traction ( if there is such a thing ). The Pirelli MT16s are Pirelli's cheapest tires too.
-I usually gear my bikes down a bit. Like on my KTM 525EXC, I went from a 48T rear to a 52-53T. On my Honda XR400 I went from a 45T to a 48T. On my Honda XR250s ( with big bore kits), I had to go to a 46T from a 48T. Which is gearing taller as it was geared too low from the factory. Like the TTR125 Yamaha is geared way too low. I had to go up 2 teeth on the Countershaft sprocket on my wife's bike.