I just wanted to offer a simple theory for what happened to Stamets in the mirror. My initial reaction watching the scene is quite simple - it was our first glimpse showing him out of sync with time. "Mirror" Stamets does the same actions as "real" Stamets - just a few seconds later. It's a subtle foreshadowing of what we find out about is life out of the timeline in "Magic to Make" and also his sight into different points in time "Si Vis Pacem, Para Bellum". I think the personality changes can wholey be explained by the DNA upgrade and spore drive interaction. For me, this simple explanation keeps me believing in the choices the writers are making for Stamets.
I had missed some of the bonus content and am finally getting to your coverage of S1 ep1 Caretaker. I've really enjoyed it. I have seen the first 3 or 4 seasons back when they originally aired but haven't seen any since then. I can't say that Voyager stuck with me, it's my least favorite Trek. So my question for anyone is: What are the 5-10 best episodes of Voyager?