My knees also don't like diagonal lunges.
The most bothersome moves for me are moves that are variations off of planks - like side planks, the one where you're supposed to pull up weights from plank (alternating arms), the ones where you kick out your leg and twist around on one arm, and squat thrust moves.
I have 2 problems - one is that so much weight on one arm kills my shoulder and the other is that I don't think my arms are long enough for some of these moves. I'm tall and although my arms are fine for my body, I do have longer legs and I think those horizontal moves require longer arms
At least that's what I tell myself.