Wow, that sounds weird. I love getting my BOM's from Fatquartershop.com. I swear they give you enough fabric to do the project twice over.
I have three BOM's going and eventually I'll get caught up.
My LQS orders all the fabric for the BOM's depending on how many people sign up. They usually don't cut the fabric until right before the beginning of each month. The patterns do come from the distributor though, so that might be right that they didn't get them or in the correct order. They may just be behind on the fabric cutting or rearranging how they are cutting it based on what patterns they've actually received.
Which BOM's are you doing?