if you are happy with around 700hp, the stock bottomend can be left in there, and we have LOTS of viper-engined, Supercharged engines with over 10,000 miles on them. so you have nothing to worry about, but like anything you get what you paid for, and nothing can take the place of an experienced tuner to get the most out of your project with reliablitly.
also, please remember this: dont think that because you throw money at it, that it makes the end result that much better. the more proven simple installs can make as much if not more than the ones that had a ton of unnesesary shit thrown at it.
take a friend of mine in newyork: he had bought a ton of cool bolt on, supposed to make more power; STUFF, and for almost 2 months the shop doing the install called me dailey. every time, i would say the same things for them to do, remove those & this, and install this, and every week they would call me back to ask why couldnt they make it work?
they made it more complicated than it needed to be. it even went to another tuner shop who aLso called me. i gave the same advice.
for 2 months, same thing. finally my friend & i had a heart to heart talk. he demanded that his tuner do what i said, do away with the $2500 worth of shit he didnt need, and VOOOLAAA an instant 100hp gain, and instant drivability and now he is back driving his truck again.
bottom line, stick with what works, and you wont have troubles.