I don't know what the result will be, but what you're basically seeing is the beginning of the end of talent subsidies to the rec leagues. But maybe, just maybe this will be a good thing. Less naturally talented players will get more opportunities in those pitching and catching roles and there's also a chance players with potential will view the local "special team" as something to strive for.
Just to be clear, I don't think it's wrong or selfish for the more talented ones to find something more appealing to them. I was speaking from the standpoint of a rec-league coordinator and what is best for the growth of that league. But what's best for the league isn't the burden of the best players.
And it could be that these less talented (or often just less experienced) players will rise to the occasion and be better for it, as you suggest. I just worry that softball needs those top players more than other youth sports do. For example, if my DD is an average 10U rec basketball player, I might be kinda happy to see the best 2 players leave for a travel team. DD might finally get to touch the ball. But in softball, I might be thinking, OMG, who's gonna pitch? Not just for DD's team, but the other team. Will she ever see a strike? Lots of sports are pretty fun for kids no matter the level. But seems to me that softball is more dependent on the quality the pitching. Don't want it too good, and definitely don't want it too bad. Needs to be somewhere in between.