Maybe I'm reading too much into it, or not enough, but I think all Furry is trying to convey is that there is a difference between how we describe something, and how that something actually is in reality. Negative numbers are useful to describe things, but they don't obviously exist in reality. Likewise, his complaint with QM is that just because it correctly explains things, doesn't mean that some of the conclusions it draws are how the universe actually works.
If I remove 4 apples from 2 apples, I'll have -2 apples. Obviously that isn't true because it's a simple concept we understand. But something complex that we don't fully understand, you start seeing things like this with Negative mass, dark matter etc. You see a headline "Dark Matter detected!" and think wow, but if you saw a headline, "Negative apples detected!" you'd think it was hogwash. I believe he's just saying be careful with the conclusions because concepts are not reality.