Help... Vin #'s dont match

So you guys are saying that if at some time the car got hit and needed the core support replaced and the owner decides to replace the package tray that was butchered he has a stolen car? By the looks of some of the rusted out hulks from the east coast I see being totally re-paneled in build threads here there's a lot of "stolen" cars running around.
Not stolen as much as rebuilt, which would blemish the title. Nobody would ever be able to get a loan towards it then. Most people wouldn't know about the ID numbers on the body (I've had my Duster for 16 years now and didn't know), and probably wouldn't mind if two cars were made one whole so long as the work is of high quality.