| Date | Player | From | To | Amount |
|---|---|---|---|---|
| 31 Aug 16 | Jannik Bandowski | BDXDOR | VBXBOC | Undisclosed |
| 12 Aug 16 | Moritz Leitner | BDXDOR | LXXLAZ | Undisclosed |
| 12 Aug 16 | Moritz Leitner | BDXDOR | LXXLAZ | Undisclosed |
| 01 Aug 16 | Jakub Blaszczykowski | BDXDOR | VWXWOB | Undisclosed |
| 22 Jul 16 | André Schürrle | VWXWOB | BDXDOR | Undisclosed |
| 21 Jul 16 | Mario Götze | BMXMUN | BDXDOR | Undisclosed |
| 08 Jul 16 | Jon Gorenc Stankovic | BDXDOR | HTXHUD | Undisclosed |
| 08 Jul 16 | Jon Gorenc Stankovic | BDXDOR | HTXHUD | Undisclosed |
| 06 Jul 16 | Henrikh Mkhitaryan | BDXDOR | MUXMAN | Undisclosed |
| 06 Jul 16 | Henrikh Mkhitaryan | BDXDOR | MUXMAN | Undisclosed |
| 01 Jul 16 | Raphaël Guerreiro | LXXLOR | BDXDOR | Undisclosed |
| 01 Jul 16 | Ousmane Dembélé | SRXREN | BDXDOR | Undisclosed |
| 01 Jul 16 | Raphaël Guerreiro | LXXLOR | BDXDOR | Undisclosed |
| 01 Jul 16 | Ilkay Gündogan | BDXDOR | MCXMNC | Undisclosed |
| 01 Jul 16 | Emre Mor | FNXNORD | BDXDOR | Undisclosed |
| 01 Jul 16 | Ousmane Dembélé | SRXREN | BDXDOR | Undisclosed |
| 01 Jul 16 | Ilkay Gündogan | BDXDOR | MCXMNC | Undisclosed |
| 06 Jun 16 | Sebastian Rode | BMXMUN | BDXDOR | Undisclosed |
| 23 May 16 | Mats Hummels | BDXDOR | BMXMUN | Undisclosed |
| 14 Jan 16 | Ciro Immobile | BDXDOR | TXXTOR | Loan |
| 14 Jan 16 | Ciro Immobile | BDXDOR | TXXTOR | Loan |
| 02 Jan 16 | Jonas Hofmann | BDXDOR | BMXMON | Undisclosed |
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