Maybe think of it like this: you'd never whine a Harley out in 1st gear all the way into a rediculous rpm range, because you know there's just as much (if not more) power waiting for you the moment you shift to the next gear and re-twist the throttle.
And just the opposite, you'd never hop on a Katina or CBR1000 (on-road race bikes) expecting to be blown away by their low-end rpm pull. It's just not there, so you have to dig into the rpm's more until you get your grin.
Those being extreme examples, I think the stage 1 and 2 follow similarly, based on how you want to ride your bike. If you go stage 2, I think you'll be fine as long as you remember you have to keep your bike in the powerband (which would be higher rpm's than stage 1) or it might feel like you're lugging. Stage 2 probably tries to mimic 2-stroke riding more closely than the stage 1 does.