Well, while I do admit this is probably going to resemble more the Tom Hanks film "The Money Pit" than a set piece for awhile, I am glad somebody is getting it. So congratulations. As for the money spent $61 doesn't seem like much (or was that supposed to be a comma rather than a period Tymer?).
The biggest key as I see it is making sure this bird has a fully paid for restoration home for at least the next couple of years, so it doesn't have to get pulled out with the work half done. Secondly, it does need a first class restoration team (and no, I don't have the wood working skills to volunteer for this). I would say in addition to enlisting the aid of Okuda and/or Drexler, it would not be a bad idea to also enlist the aid of a set designer/builder (a tradesman who works on Broadway doing sets might be a good score) to make sure that the wood and construction materials selected for this project will last under wear and tear. As a sideways suggestion, Bethpage on Long Island might also have some old tradesman who are experienced with building plywood engineering mockups for Grumman of aircraft and spacecraft (such as the Lunar Modules) during the old days who could also provide some input. Homebuilt aircraft builders with experience in working with wood, laminates and fiberglass might also not be a bad idea to consult. Although weight here might not be much of a factor, except in regards to transportation. And well, there have been nearly 50 years of advances in wood construction since the shuttle was first built.
I would also say too that if you guys are soliciting donations, don't stop with that. Reason being is "restoring" this bird I think is going to be a bit more costly than you realize and the final restoration bill could potentially dwarf the auction bid. But doing it right and making it as durable as possible (which could mean weatherproofing it if you guys are considering perhaps having Intrepid display it near Space Shuttle Enterprise on the deck of the carrier) is probably going to be more of a priority here than trying to keep things all original in regards to the materials used.