The number one thing to me would be to not care so much about winning. In other words, carry more guys on the roster or set rotations before the tourney starts and stick with them. The problem well organized teams run into is a guy really struggling and having a 35 pitch inning....they projected him to get 5 innings and he is out of gas after 3. Most teams are not well organized.
The problem with carrying larger rosters is parents and player will complain about paying money and traveling and not playing. So, you have a team full of parents and players who don't want to not be in games and coaches wanting to win above nearly all else and 72 innings in 2 or 3 days. Bad mix.
Add in the fact that some teams in warm weather states play year round and will play 3 or 4 weekends a month and its crazy. Great for hitters, not so much for pitchers.
As for recovery....it depends. But, having seen multiple times where kids have pitched more than once in a day, pitched and then moved to catcher etc it doesn't seem recovery is on the mind of many travel coaches. The kid/parent has to take the lead in this.
My biggest pet peeve is a kid that is playing the outfield or sitting the bench getting called in because the pitcher suddenly falls apart. He gets 8 warm up pitches and thats it. To me, this comes down to the roster being too small and or the coach being totally thoughtless.
The travel team my son plays for has a pretty disciplined approach to things. They will always have 1-2 pitchers in the pen. After the 2nd or 3 rd inning, no matter how well the starter is doing, they start getting loose. Bands, stretching and light catch. They number it 1, 2, 3. "Guys, get to a 1"....or...."Pen, 2". One is light warm up. Two is harder throwing and slower paced warm up on the mound. Three is get hot cause you're coming in soon. The advantage here is if the pitcher that is in starts to scuffle badly he is not out there long throwing extra pitches. Also, the pitchers in the pen have had at least a full inning to get loose and warmed up. When one pitcher comes in, another takes his spot in the pen. So, they are organized. They have their pen schedule for the games laid out, righties, lefties, pitch counts, things to work on ect.