I second kimba's motion. It's the obvious solution. The kid's out of his league, as they say.
When my son was in Little League, there was a rule that the game would be called in favour of the leading team if they opened up a thirty-point lead. This would spare the losing team the embarrassment and the depression of being whipped 120 to 3, once it became obvious that's where the game was headed. Kids play for fun, and not everyone in the Little Leagues is going to be headed into the majors. The league is a service and its users are the players. They come looking for fun, not life lessons, and if there's no fun for a 9-year-old in being whipped 100 to 1, the league has to remove whatever it is that makes it not fun.
It's the same with a Little Leaguer and a 40-mph fast ball. Every kid who steps up to the plate is going to be struck out or walked. In addition, in return for the pleasure of being humiliated in every one of his at-bats, the kid has to run the risk of being hit by a 40-mph ball and seriously injured. A parent would have to be nuts to put his kid into a "game" like that.
Bumping the pitcher up to the next division is an obvious win-win solution to the problem. It's pure common sense, something that once again the conservatives who comment on this issue have proven they completely lack.