Hard to say. I will tell you, however, that my Guitar Mill body and Warmoth neck fit like they were made for each other. I think the odds are in your favor.
I got a USAGC neck for my Warmoth Strat body. Still had to have the neck pocket shaved slightly and a shim installed to get the proper action/string height on the guitar.
My answer would be "Maybe, but doubtful."
They're not just "bolt together" pieces, even if they do "bolt on".
well my recent USACG neck and body fit beautifully until finished! They arrived a very tight and nice pressure fit but when finish went on....surgery was needed. My next build I will shave neck BEFORE finishing so it aint quite so tight.
I think any body and neck, even from the same manufacturer, could wind up needing a little massaging like a shim or something. As long as they're both set to Fender spec, they should mate as well as any two necks and bodies do.
Three of my partscasters have guitar mill bodies. One has a Music Kraft neck, another an All Parts neck, the third a Hefner neck. I had no problems with any of them.