| Michael Arias | RHP | Scranton | 7-Day | | |
| Carson Coleman | RHP | Scranton | 60-Day | | |
| Cristian Hernandez | RHP | Scranton | 7-Day | | |
| Brandon Leibrandt | LHP | Scranton | 7-Day | | |
| Alex Mauricio | RHP | Scranton | Full Season | | |
| Jayvien Sandridge | LHP | Scranton | 60-Day | | |
| Alex Jackson | C | Scranton | 7-Day | | |
| Braden Shewmake | UTIL | Scranton | 7-Day | | |
| Brennen Davis | OF | Scranton | 7-Day | | |
| Cam Eden | OF | Scranton | 60-Day | | |
| Duke Ellis | OF | Scranton | 7-Day | | |
| Cooper Hummel | OF | Scranton | 7-Day | | |
| Zach Greene | RHP | Somerset | Development | | |
| Chase Hampton | RHP | Somerset | Full Season | #8 prospect will essentially miss two full seasons (threw only 18.2 innings in 2024)
| |
| Brock Selvidge | LHP | Somerset | 60-Day | #9 prospect pitched well in16 starts last season. | |
| Ben Shields | LHP | Somerset | 60-Day | | |
| Kevin Stevens | RHP | Somerset | 60-Day | | |
| Luis Velasquez | RHP | Somerset | 7-Day | | |
| Trystan Vrieling | RHP | Somerset | 7-Day | #23 prospect skipped straight to Somerset in his debut campaign, with mixed results | |
| Thomas Balboni Jr. | RHP | Hudson Valley | Full Season | | |
| Brian Hendry | RHP | Hudson Valley | Full Season | | |
| Justin Lange | RHP | Hudson Valley | 60-Day | | |
| Cade Smith | RHP | Hudson Valley | 7-Day | #15 prospect had a solid debut campaign in 2024. | |
| Edison Vivas | C | Hudson Valley | Development | | |
| Owen Cobb | IF | Hudson Valley | 7-Day | | |
| Roc Riggio | 2B | Hudson Valley | 7-Day | #25 prospect is a gritty, overachiever type with fan favorite potential. | |
| Allen Facundo | LHP | Tampa | 60-Day | | |
| Henry Lalane | LHP | Tampa | 60-Day | #10 prospect has a golden left arm, but staying on the field is showing to be an issue. | |
| Aaron Nixon | RHP | Tampa | Full Season | | |
| Wyatt Parliament | RHP | Tampa | Full Season | 7th round pick (2024). Yet to make debut | |
| Yarison Ruiz | RHP | Tampa | 7-Day | | |
| Luis Serna | RHP | Tampa | 60-Day | | |
| Adam Stone | RHP | Tampa | 60-Day | | |
| Enmanuel Tejada | IF | Tampa | 60-Day | | |
| Joe Delossantos | OF | Tampa | 7-Day | | |
| Luis Durango | OF | Tampa | 7-Day | | |
| JoJo Jackson | OF | Tampa | 7-Day | | |
| Willy Montero | OF | Tampa | 7-Day | | |