Keeping boss fights unrandomised is a really interesting idea and an elegant solution to many of the problems inherent in randomisers. However, for me at least, seeing the crazy combinations on opposing trainers' teams (especially in boss fights) is the best part.
Overall, I think people just need to moderate their expectations about what a randomiser can deliver in terms of satisfying gameplay. It's less an equally viable game mode and more just a neat little side-project that's fun in small doses.
Of course, there are ways to create a more structured Pokemon randomiser that affects everything while still retaining the feel of the original game, but that requires a LOT more work. From my own experience messing with randomising software I know that it's really hard to get the balance right.
In other news, I'm up to the Move Reminder and hoo boy is it wild:
Also I still don't quite understand how Doom Desire works. I reported before that it's shuffled to Fusion Flare on my file and lands two turns after it's used, as expected. For some Pokemon, though, it seems to just deal Steel-type damage immediately, like a regular attack.