In my situation it was
not a brand new case or guitar when this happened, as I mentioned both were around 3.5 years old. But it was stored for 5 weeks in an air conditioned house.
I can't speak to the OPs claims, I'm just posting this because it happened to my guitar w/ a Cedar Creek case.
In the scheme of things, this is not a big deal to me. But it happened and really it shouldn't. A fairly expensive custom case built for acoustic guitars should be lacquer safe. If I store the guitar again, I'll be certain to put a piece of cotton over the neck rest.