Good question.
As a general observation, the within model variation is greater than between models. If you are a fan of inferential statistics, this means there has got to be a large difference between samples before you get a significant difference.
Bypass volume varies some from model to model. You may get less of the Dreaded Fox Outside Loop Disease from the ones with a bit less. (Look at 'em from the front; some of the bypasses stick out a little more prominently than others). I haven't done a study on this yet, burp wise; this is pure speculation. Adrich measured a bunch of them on Isky years ago, but we didn't test.
Some other thoughts...
Quality control is improved now. You are more likely of getting a good one.
There is a half ounce difference between the earliest Sandcast 4 bolt head, and the latest 50th Anniv. This may have some mild importance to you. I am not including the muffler here.
From about 1970 on, the motors accommodate mufflers. A plus to many of us.
On the Sandcasts, the mounting holes on the lugs are mighty close to the edges. These models are more damage prone from crashes.
As the die cast cases progressed from the early 50s to present, you can see a progression of more gussets, and general strengthening of the case. So they are a bit better when you wreck 'em.
There is some difference in the wrist pin clips. I haven't paid much attention here. Someone help me out.
Do you like the early Austin Craft NVAs? I do.
The early Foxes don't have a flange on the spraybar where you stick the fuel line. This is unhelpful, since the line can easily persuade itself to come off (especially if silicone; this is one instance where the cheap clear neopreme is better. It likes to grab.
I like the Sandcasts because they are Period Correct on OTS and early Classic designs. But that is just me.
50s and 60s era Foxes often came with aluminum filings in the case at no extra charge. But, hey, if the engines have survived this long...
Do you like Matte or Shiny? Plenty of choices. No running difference that I can tell.
If you have a Black and Gold model, spend $150 on a serialled 50th Anniv. B & G Fox. It would look cool. Ted Fancher: didn't you say you might do this, once? Or was it someone else here?
I'll think of some other stuff...