Buy a 442 cc kit and put it back together!
Well, that'd be ideal, yes...
I'd clean up all the parts, removing the carbon and such, and start putting it back together. While you've got her apart, check your cam chain tensioner and valve adjustment. She'll probally run better than ever now that all the carbon is out!
There is a lot of carbon build up on cylinders 2 and 3 way more than on #1 and 4 , #2 and #3 were the two cylinders low on compression.
I'm supposing the carbon buildup is on the heads/valves? Make sure there isn't any carbon on the -backside- of those valves! It's quite possible that carbon buildup there was causing a valve not to seat fully, resulting in a loss of compression. Severe carbon buildup can do that.
As for what causes carbon buildup? Usually an incorrect mixture adjustment, probally -way- rich, or the engine being run for a long time with poor spark plugs that resulted in an unclean burn. Lugging the motor and not getting her into the powerband can do it too. Some people are afraid of Revs, but on engines that are built for them, low revs can actually be worse (carbon buildup).
As a plus, at least you are getting all the carbon cleaned out! If a chunk had broken off on the highway and fallen into the combustion chamber, you'd could be in bad shape.