Aaaah mate, sorry to hear that, they did cumulate the mistakes in your build :/
As long as it get sorted out at the end, at least, it's fine. The good news is that, even though the neck was looking totally fine after the corrections of the inlay, in real it could had still shown some marks and scars from the move. A total new neck is at least correcting that. Bug him with some messages, I talked with him by messages 2 days ago so he should be around to answer hahaha. To be noted, the end of the process of my neck was a bit long as well, it took 2 weeks more when the neck was nearly ready to go. Hopefully these 3 weeks are the end of the line and you get some good news this week !
By the way, if I were you, I would ask them if they can had the second neck in the package. They won't do anything with it anyway and who knows, if you do a build yourself one day, that's nice to have an extra neck available around ! The measurements are wrong, but it is still a good looking neck.