My Progress: chapter 2, gather 1 stack of beryl and chromium, and 1 half-stack of vanadium.

I was in the nether mining for quartz and used the /home command to go back to the overworld, after doing so I continue to work towards my goal of gathering a stack of beryl. when I manage to create some more beryl, I notice the counter went back to 0% progress. I open the quest interface and notice all of my progress has been deleted. I redid some of the goals just to make sure, and it even gave the rewards as if I were in a brand new game. it did not reset the actual dimension (like getting rid of the blocks I had actually placed and mined) so I was able to (re) progress fairly quickly but it's still a drag to have to remake all the materials again.
I've provided two pictures below to give an idea as to my progress. picture 2 shows my achievement tree with the T4 cobble gen behind it.