This is pretty interesting. If I had a lot of time on my hand (which I don't as a PhD student), I would like to look at Dr. Cumming's research articles and see if he only discusses limitations in the last paragraph of each article, like virtually every major researcher and journal does. I agree there is CTE hysteria, partially caused by McKee, Stern, and others at BU, but this article could have been more of a general referendum at journalists blowing research articles WAY out of proportion. I will say that for reasons unknown to me people like Dr. Stern (who I have seen give a talk on this study) over-dramatize the research, saying things like "I went to the Superbowl and used to love football; now, I refuse to even watch it on TV."
Parceling out how substance abuse, in particular, mediates or moderates tau deposits in CTE is an area that has been relatively underexplored, so I appreciated the article's commentary on that topic. That being said, the research is not invalid because of its limits, but it is a step in more fully understanding of CTE pathogenesis.