I agree with Barrys. Scramblers are somewhat unique among 'collector' cars in that much of the value can rest on how well restomoded the car is, not just whether the numbers all match.
Because Scramblers were not built to a very high standard to begin with, many folks feel that a well- improved Scrambler is worth at least as much- if not more -than a stock one. Right now on CarGurus, there's a CJ8 with a hemi on a TDK frame for $90,000 and a stocker for $20,000, just as a random example.
My 8 is completely rust- free with a perfect frame and a rust free tub, yet I will eventually put an Aqualu tub and TDK frame on her.
Bottom line with these I reckon is build it the way you want it but build it well. A well-built, tasteful 8 will always have a buyer when you sell it; whether it's bone stock or has almost nothing from Toledo left on it.