Is building a stroked 318 better than a stroked 340/360?

I generally get and agree with your main point, but your skating around the fact that 99% of the mopar engines are already built with great S/R/B ratios you got to go out of your way to build a poor one. Mainly being the 408 practically all of the stroker B/RB engines have better B/S/R ratios then a 408 and a lot can be built in ideal range. Even a 543 has slightly better B/S/R ratios than a 4" 6.123 small block. So it's mainly a paid choice to build it out of your mopar engine.

But in the end of the day most seem happy with that choice.
The bottom line is that whatever floats their boat is good. After all it is their dime, so as long as they are happy with the result.
Considering the OP asked if building a stroked 318 was better than a 340 or 360, we should keep our focus in that direction. Big blocks are their own kettle of fish. Fit and weight are concerns there.
As to the stroked 318 vs 340 or 360, I figure build what you have if it is sound. Then we could get into the numbers match pot, where a stroker can sneak in, in disguise as it were.