"There are multiple documented instances of a primer igniting because a shell holder was used in a kinetic puller."
Well, there was at least ONE. And there is reason to question the validity of that story. That looks like a screw up from loading a round start to finish in a turret press without removing the case; that's less than an ideal way to reload, IMHO. But, put the shell holder and cartridge back in the press and pull the bullet with wire cutter pliers and there will be no hazard at all to punching the primer out normally with a sizer die.