Maybe this is why you said you weren't a forum guy, but here goes,
That's a survivor, the second you ride it on dirt it'll never be the same. I gotta agree with the poster above, although you did say it would be bolt-on only! And for that we thank you. You should probably keep all of the parts with the bike rather than selling them... even though I'm sure there are people here that would love to have the parts.
As for the plans you said you have, it actually sounds like a great/cool idea. If you really want to make a factory looking bike then I don't know why you would ever change the air cleaner system. Honda never used pods. If you plan to keep the side covers on there is almost no point as you can barely see them anyways (the ONLY reason to have pods, and I think most would agree is it a dumb reason).
If I were you and I wanted to make a "factory looking honda/4 scrambler," I would spent a bunch of money on a custom 4 into 2 double side pipe exhaust. That seems to me the only way to go.