Right,jackobyte had the same problem with his MT.His was melting the spur gear(large). We found that the brake pad on the layshaft had disintergrated and was causing a build up of friction on the shaft thus throwing heat through the layshaft to the spur and over heating it. He has a steel pinion(small) gear so this was not affected.
If you take either one of your gears off you should be able to spin the pinion shaft (clutch bell) and the layshaft freely without any binding.If not and you are using a plastic composite gear carrier(standard on most FG's)there might have been excesive heat build to distort the carrier and make the bearing seats 'sloppy' resulting in play.If so a new carrier and bearings are in order.
Another is you don't have the correct 'mesh' on the gears.If you are a tooth out then you will have this problem and wont be able to cure it until the teeth add up. An MT has a 16T pinion and a 48T spur.
Good luck.
J.