It is not an issue of not knowing how to do it. I have done frame off restorations of a few cars (Currently a 64 Datsun 1500), it is the issue of I bought a Cpo car for a reason, so I would not have huge repair bills right away. I am finding out, that is not the case. I have contacted the GM of the store, and got the "I will look into it and call in a few days" routine. There has to be somebody in charge of the certified program at Lexus, how do I contact them?
Thanks for all of the help so far, it reinforces the idea that I am not the crazy one :)