Yoshida said they don't figure them in. In which case I'd say some fights are designed around some kind of gear check, probably.
Either that, or Yoshida doesn't know what he's talking about.
If that's the case, then the gear check for A4S must be i210+ which doesn't make sense.
Because they were rolling in i203-205+ (if ignoring melded gear) and had some of the best DPS players out there, and would struggle with all of the DPS checks with healers DPS'ing.