| Goals | Players | Sections | Competition |
|---|---|---|---|
| 3 | Jaime Mata | Group Stage | UEFA Europa League 19/20 |
| 3 | Angel Rodriguez | Group Stage | UEFA Europa League 19/20 |
| 2 | Kenedy | Group Stage | UEFA Europa League 19/20 |
| 2 | Pedro Rios | Group Stage | UEFA Europa League 10/11 |
| 1 | Deyverson | Round of 32 | UEFA Europa League 19/20 |
| 1 | Leandro Cabrera | Group Stage | UEFA Europa League 19/20 |
| 1 | Jorge Molina | Group Stage | UEFA Europa League 19/20 |
| 1 | Javier Arizmendi | Group Stage | UEFA Europa League 10/11 |
| 1 | Adrian Sardinero | Group Stage | UEFA Europa League 10/11 |
UEFA Europa League 23/24 Top goal scorers