First, he lost catcher Lou Marson to a right ankle contusion that put the top catching prospect on crutches and has him out for at least a week.
Not long after that came news that top shortstop prospect Jason Donald would be lost for three to four weeks because of a torn meniscus.
All in all though, Huppert isn't too concerned, because he's got a number of other quality players on his club to plug in.
"Did you look at the big league experience that was on that field tonight?" teased Huppert after the 'Pigs beat Charlotte 3-2 in ten innings. "It's not like we had to put in some A-ball players in there."
That may help his club in covering up Donald and Marson's injuries, but it doesn't make their loss easy.
A couple of steps below Lehigh Valley, the Clearwater Threshers have lost Dominic Brown to a broken finger that will keep him sidelined for three or four weeks as well.
That makes three prospects among the top ten in the Phillies organization that are out of their respective lineups for some amount of time.
The good news is that none of the injuries are the sort that should jeopardize the status of any of the players for the long-term.
Both are coming off Tommy John surgery, Mathieson for the second time in his career.
Zagurski is pitching at Double-A Reading and has started to show definite progress with his velocity, movement and location in recent appearances. In his last three outings, Zagurski has pitched four innings, allowing one earned run (2.25 ERA) on two hits, no walks and he has struck out nine hitters. On the season, Zagurski has a 4.67 ERA with Reading in 15 appearances.
Mathieson has yet to return to the mound, but continues to rehab in Clearwater and moves closer to throwing off a mound in the near future.