I'm not sure what you're saying here. What "suboptimal decision" do you think it's encouraging? Taking Toll the Dead over Fire Bolt or Acid Splash? That's not a suboptimal decision at all, as the math demonstrates.
If anything, it seems like you're doing precisely the thing you're concerned about, except with EE: You appear to be foregoing demonstrably better cantrip options just because they don't work with Empowered Evocation.
Apologies if I'm misreading the tone here but it seems needlessly hostile, especially since you seem to be humoring something that's completely against the rules (Hex + Magic Missile) but not something that is supported by the rules.
It's an unfair representation of the case to say that people think it works that way just "because JC said" or because they're "unimaginative." Many people already thought it worked that way because the PHB said, have thought so since the PHB was released, and at some point someone asked JC if they were reading it right, and he confirmed the pre-existing expectation matched his.
Yeah, that seems pretty strange to me.
Someone nerfing the MM combo I can certainly understand. The idea that Hex+MM is somehow more valid just seems bizarre to me.