Axis pedals offer tons of adjustments, so I’d be extremely surprised if you couldn’t adjust the pedal to compensate for that. And unless the Mapex is a very basic budget model, I’m sure you could adjust that one to compensate as well.I’m having the same issues with my Axis and Mapex pedals.
For what it’s worth, I own two bop kits—a Stage Custom Bop with mesh heads for playing at home, and a Gretsch Renown bop for jazz gigs. I don’t use a riser with the Yamaha, and lowered the beater slightly on the pedal for that kit so it strikes nearer the center of the head. No issues with feel or playability with that kit. For my Gretsch, I installed a Bass Plate riser, and again, no issues with any of my pedals.