When I tore my 95 KDX engine down for the first time, I also found that the plating was worn through above the exhaust port, at the very top of the ring travel in the cylinder. Mind you that this was after probably five years or so of riding with the motor never being apart. It is probable that this is the just the point where the piston imparts the highest force on the cylinder wall, and therefore the cylinder plating wears out there fastest.
Regards,
Lutz