They have a new guy responding to emails who so far has been about a billion times more reliable and responsive than Kevin. He's responded to every question within a day and hasn't ignored any questions like Kevin has the tendency to. Apparently this isn't the first Denison or Spencer Tyranny, if it was there would be a hefty fee for a first time run, so there are a few of them floating around somewhere. I think it has a lot more to do with EGC just refusing to update their website more than changing the rules, this is a custom order direct from EGC and they seemed to have no reservations at all with modifying the specs of a Tyranny.
I've had a crappy order with EGC in the past too, they took ages and ignored me but did in the end practically give me the product for the price of parts. I don't know what you mean about the Denison neck being an experiment though, it's on a fair few of their guitars and is a standard request on most models, acid dipped finishes are also available on everything and they've been doing them for a while
tl;dr: try emailing jason at electricalguitarcompany dot com instead of Kevin/through their site if you want to get anywhere.