Hardy,
Susan Don't Lie (could be a song title, eh?).
Sure, they make a mistake every once in a while, but many of us have seen them admit those publicly, right here in this forum. As you note, they will make it right, whether an unfortunate accident, misunderstanding, or simply a bad piece of wood.
My custom was set back a few months by a bad neck, though at least it was discovered before the body was assembled. So I feel your pain, but look on the bright side: as a result of the delay, now you're getting ebony lams. The extra time allowed me to change some things for the better as well.
So try your best to be patient. Maybe it's karma.
-Bob
(Love the grain placement in the body and peghead.)