Pinstripes have less resonance than the G2, so if you want the shell to resonate and 'express' its 'natural' sound more, then go the G2, if you prefer a much more 'pizza box' sound, then go the Pinstripe.
Evan's hydrolic heads are the equivalent to the Pinstripe, and I would say the Emperor (Remo) is the equivalent to the G2. So in all the G2 and Pinstripe aren't totally different as they're both 2 ply and give a more controlled sound... but the G2 has less of a 'thud' and more of a 'open' sound.
If the rack toms sound low and loud, thats fine if you want that... if you wanted muffled and high, you'd probably go the Pinstripe and tune it really tight... No offence, but I'm not sure what your point is there...
The ringing in your floor tom is most likely overtones from the shell, you can eliminate these if you don't like them (different skins and tuning, moongel, tape, o rings etc), but honestly, when playing a gig, they probably won't be that prominent and will be taken out by the other instruments...
As for you last point, there really isn't a proper natural sound; if the drum sounds horrible, it can still be natural, but just not in tune... this is probably getting frustrating.... try
http://home.earthlink.net/~prof.sound/index.html for a great guide to tuning... listen to recordings and find the sound you like, then experiement with the same skins your favourite drum sounds use (it won't be exact because of production, triggers, drum quality, attributes etc...) but better than nothing. Hope this wasn't confusing...
opto