Several times I have had plans to take a gun and have it rebuilt into something different, something better suited for a specific purpose. I did it only once...on all other occasions it was way cheaper, and way faster, to just get a new gun. The one time I did it resulted in a gun that didn't quite suit me as well as I had hoped...and then I lost a bundle on resale. You will never recoup the dollars spent on custom gunsmithing by selling the gun.
You will, however, have a distinctive, perhaps even unique, rifle. How important that is to you is something only you can decide.
If your '06 is shot out, and all you intend to do is rebarrel, then go ahead...the gun is useless without spending some money on it anyway. But if you have a perfectly good rifle now, sell it and buy another perfectly good rifle that suits you better. My two cents.