When has that happened? T8 missile, A1 prey, and T4 spins are the only things I can think of off the top of my head. Oh, well the slaps in A3 I suppose would actually be a good example.

Right now you can't really have major physical damage on the whole party because healers have a disproportionately high amount of magic defense compared to physical defense. All the physical damage above is part of a mechanic that you are intended to do to lower that damage to easily managed levels.

The system is designed originally around physical damage=>tanks (sometimes melee), magic damage=>party.