Fair enough, I think I get your point now.
No you're missing it entirely.
To put it in short instead of a wall of text, in an ideal world:
PvP endgame gear = For PVP content only
i.e. Warzones and open world PvP (maybe good enough for planetary dailies but they don't have much of a gear requirement but useless for harder endgame PvE content like flashpoints and operations)
PvE endgame gear = For PvE content only
i.e. Flashpoints and operations (focus on player vs environment content but useless for warzones).