Just wanted to chime in that Arcane and Frost set bonuses have already been taken into account when I developed the APLs during beta. Fire also takes it into account, except some recent developments.
Simulations don't "think" anything. We don't have magical settings that change the proc behavior. Instead, we set the RPPM according to live and PTR numbers, and let the RNG handle the reset - just like it is in game. Therefore, there isn't such a thing as "sims caring about people thinking that the RPPM is 100% proc on pull".