| 15 | Robert Lewandowski | Group Stage | UEFA Champions League 19/20 |
| 13 | Robert Lewandowski | Group Stage | UEFA Champions League 21/22 |
| 12 | Mario Gomez | Group Stage | UEFA Champions League 11/12 |
| 9 | Serge Gnabry | Group Stage | UEFA Champions League 19/20 |
| 9 | Robert Lewandowski | Group Stage | UEFA Champions League 15/16 |
| 8 | Robert Lewandowski | Group Stage | UEFA Champions League 18/19 |
| 8 | Robert Lewandowski | Group Stage | UEFA Champions League 16/17 |
| 8 | Thomas Muller | Group Stage | UEFA Champions League 15/16 |
| 8 | Thomas Muller | Group Stage | UEFA Champions League 12/13 |
| 8 | Mario Gomez | Group Stage | UEFA Champions League 10/11 |
| 7 | Harry Kane | Group Section | UEFA Champions League 23/24 |
| 7 | Thomas Muller | Group Stage | UEFA Champions League 14/15 |
| 7 | Ivica Olic | Group Stage | UEFA Champions League 09/10 |
| 7 | Miroslav Klose | Group Stage | UEFA Champions League 08/09 |
| 7 | Roy Makaay | Group Stage | UEFA Champions League 04/05 |
| 7 | Paulo Sergio | Quarter-finals | UEFA Champions League 99/00 |
| 6 | Leroy Sane | Group Stage | UEFA Champions League 21/22 |
| 6 | Robert Lewandowski | Group Stage | UEFA Champions League 14/15 |
| 6 | Roy Makaay | Group Stage | UEFA Champions League 03/04 |
| 6 | Giovane Elber | First Group Stage | UEFA Champions League 01/02 |
| 6 | Giovane Elber | First Group Stage | UEFA Champions League 00/01 |
| 5 | Robert Lewandowski | Group Stage | UEFA Champions League 20/21 |
| 5 | Robert Lewandowski | Group Stage | UEFA Champions League 17/18 |
| 5 | Thomas Muller | Group Stage | UEFA Champions League 13/14 |
| 5 | Mehmet Scholl | First Group Stage | UEFA Champions League 00/01 |
| 4 | Leroy Sane | Group Stage | UEFA Champions League 22/23 |
| 4 | Maxim Choupo-Moting | Group Stage | UEFA Champions League 22/23 |
| 4 | Thomas Muller | Group Stage | UEFA Champions League 21/22 |
| 4 | Maxim Choupo-Moting | Group Stage | UEFA Champions League 20/21 |
| 4 | Thomas Muller | Group Stage | UEFA Champions League 19/20 |
| 4 | Joshua Kimmich | Group Stage | UEFA Champions League 17/18 |
| 4 | Mario Gotze | Group Stage | UEFA Champions League 14/15 |
| 4 | Arjen Robben | Group Stage | UEFA Champions League 13/14 |
| 4 | Arjen Robben | Group Stage | UEFA Champions League 12/13 |
| 4 | Claudio Pizarro | Group Stage | UEFA Champions League 12/13 |
| 4 | Arjen Robben | Round of 16 | UEFA Champions League 11/12 |
| 4 | Arjen Robben | Round of 16 | UEFA Champions League 09/10 |
| 4 | Franck Ribery | Group Stage | UEFA Champions League 08/09 |
| 4 | Stefan Effenberg | Semi-finals | UEFA Champions League 98/99 |
| 4 | Mario Basler | Final | UEFA Champions League 98/99 |
| 4 | Carsten Jancker | Semi-finals | UEFA Champions League 98/99 |
| 4 | Carsten Jancker | Group Stage | UEFA Champions League 97/98 |
| 4 | Claudio Pizarro | Group Stage | UEFA Champions League 06/07 |
| 4 | Claudio Pizarro | Group Stage | UEFA Champions League 04/05 |
| 4 | Claudio Pizarro | First Group Stage | UEFA Champions League 01/02 |
| 3 | Sadio Mane | Group Stage | UEFA Champions League 22/23 |
| 3 | Serge Gnabry | Group Stage | UEFA Champions League 21/22 |
| 3 | Kingsley Coman | Group Stage | UEFA Champions League 20/21 |
| 3 | Leroy Sane | Group Stage | UEFA Champions League 20/21 |
| 3 | Philippe Coutinho | Group Stage | UEFA Champions League 19/20 |
| 3 | Corentin Tolisso | Group Stage | UEFA Champions League 19/20 |
| 3 | Kingsley Coman | Group Stage | UEFA Champions League 19/20 |
| 3 | Ivan Perisic | Group Stage | UEFA Champions League 19/20 |
| 3 | Thiago Alcantara | Group Stage | UEFA Champions League 17/18 |
| 3 | Corentin Tolisso | Group Stage | UEFA Champions League 17/18 |
| 3 | Thomas Muller | Group Stage | UEFA Champions League 17/18 |
| 3 | Joshua Kimmich | Group Stage | UEFA Champions League 16/17 |
| 3 | Arturo Vidal | Round of 16 | UEFA Champions League 16/17 |
| 3 | Thomas Muller | Group Stage | UEFA Champions League 16/17 |
| 3 | Arjen Robben | Group Stage | UEFA Champions League 16/17 |
