The Mets top prospect is 21-year-old SS Amed Rosario, according an organizational top 10 list by Jeff Paternostro for Baseball Prospectus...
| BP Rank | Player | Age | ETA |
| 1 | SS Amed Rosario | 21 | 2017 |
| 2 | RHP Robert Gsellman | 23 | - |
| 3 | LHP Thomas Szapucki | 20 | 2019 |
| 4 | 1B Dominic Smith | 21 | 2017 |
| 5 | CF Desmond Lindsay | 19 | 2019 |
| 6 | RHP Justin Dunn | 21 | 2019 |
| 7 | SS Andres Gimenez | 18 | 2020 |
| 8 | OF Brandon Nimmo | 23 | - |
| 9 | SS Gavin Cecchini | 22 | - |
| 10 | RF Wuilmer Becerra | 22 | 2018 |
The Mets recently added Rosario, RHP Marcos Molina, Becerra, RHP Chris Flexen, and C Tomas Nido to their 40-man roster, which will protect them from December's Rule 5 Draft.