2. Bundesliga   M. W D L goals
  at home 3 2 1 0 7 : 1
  Away 3 2 0 1 4 : 3
  6 4 1 1 11 : 4
DFB-Pokal   M. W D L goals
  Away 1 1 0 0 3 : 2
  1 1 0 0 3 : 2
Regionalliga Nord   M. W D L goals
  at home 1 1 0 0 2 : 0
  Away 1 0 1 0 1 : 1
  2 1 1 0 3 : 1
overall   M. W D L goals
  at home 4 3 1 0 9 : 1
  Away 5 3 1 1 8 : 6
  Neutral Place 0 0 0 0 0 : 0
  9 6 2 1 17 : 7
2. Bundesliga
2023/2024 21. Round 1. FC Magdeburg - FC St. Pauli 1:0 (0:0)
2023/2024 4. Round FC St. Pauli - 1. FC Magdeburg 0:0 (0:0)
2022/2023 21. Round 1. FC Magdeburg - FC St. Pauli 1:2 (1:0)
2022/2023 4. Round FC St. Pauli - 1. FC Magdeburg 3:0 (2:0)
2018/2019 18. Round FC St. Pauli - 1. FC Magdeburg 4:1 (1:1)
2018/2019 1. Round 1. FC Magdeburg - FC St. Pauli 1:2 (1:1)
DFB-Pokal
2021/2022 1. Round 1. FC Magdeburg - FC St. Pauli 2:3 (1:2)
Regionalliga Nord
2006/2007 38. Round 1. FC Magdeburg - FC St. Pauli 1:1 (0:0)
2006/2007 19. Round FC St. Pauli - 1. FC Magdeburg 2:0 (2:0)

For games that were decided on penalties the score after 120 minutes will be included in the ranking