| 31 Aug 16 | J. Weir James Weir |  Manchester UnitedMAN | → |  Hull CityHUL | Undisclosed |
| 31 Aug 16 | D. Henderson Dean Henderson | Manchester UnitedMAN | → |  Grimsby TownGRI | Loan |
| 31 Aug 16 | J. Pereira Joel Pereira | Manchester UnitedMAN | → |  BelenensesBEL | Loan |
| 30 Aug 16 | W. Keane Will Keane | Manchester UnitedMAN | → | Hull CityHUL | Undisclosed |
| 26 Aug 16 | A. Pereira Andrea Pereira | Manchester UnitedMAN | → |  GranadaGCF | Loan |
| 26 Aug 16 | A. Pereira Andrea Pereira | Manchester UnitedMAN | → | GranadaGCF | Loan |
| 22 Aug 16 | C. Borthwick-Jackson Cameron Borthwick-Jackson | Manchester UnitedMAN | → |  Wolverhampton WanderersWOL | Loan |
| 22 Aug 16 | T. Blackett Tyler Blackett | Manchester UnitedMAN | → |  ReadingREA | Undisclosed |
| 22 Aug 16 | C. Borthwick-Jackson Cameron Borthwick-Jackson | Manchester UnitedMAN | → | Wolverhampton WanderersWOL | Loan |
| 22 Aug 16 | T. Blackett Tyler Blackett | Manchester UnitedMAN | → | ReadingREA | Undisclosed |
| 20 Aug 16 | J. Wilson James Wilson | Manchester UnitedMAN | → |  Derby CountyDER | Loan |
| 20 Aug 16 | J. Wilson James Wilson | Manchester UnitedMAN | → | Derby CountyDER | Loan |
| 12 Aug 16 | A. Januzaj Adnan Januzaj | Manchester UnitedMAN | → |  SunderlandSUN | Loan |
| 11 Aug 16 | D. Love Donald Love | Manchester UnitedMAN | → | SunderlandSUN | Undisclosed |
| 11 Aug 16 | P. McNair Paddy McNair | Manchester UnitedMAN | → | SunderlandSUN | Undisclosed |
| 09 Aug 16 | P. Pogba Paul Pogba |  JuventusJUV | → | Manchester UnitedMAN | 105000000 |
| 09 Aug 16 | P. Pogba Paul Pogba | JuventusJUV | → | Manchester UnitedMAN | 105000000 |
| 23 Jul 16 | G. Varela Gullermo Varela | Manchester UnitedMAN | → |  Eintracht FrankfurtSGE | Loan |
| 23 Jul 16 | G. Varela Gullermo Varela | Manchester UnitedMAN | → | Eintracht FrankfurtSGE | Loan |
| 13 Jul 16 | Jimmy Dunne | Manchester UnitedMAN | → |  BurnleyBUR | Undisclosed |
| 12 Jul 16 | N. Powell Nick Powell | Manchester UnitedMAN | → |  Wigan AthleticWGA | Free |
| 12 Jul 16 | N. Powell Nick Powell | Manchester UnitedMAN | → | Wigan AthleticWGA | Free |
| 12 Jul 16 | A. Fletcher Ashley Fletcher | Manchester UnitedMAN | → |  West Ham UnitedWHU | Free |
| 12 Jul 16 | Tyler Reid | Manchester UnitedMAN | → |  Swansea CitySWA | Undisclosed |
| 07 Jul 16 | V. Valdés Víctor Valdés | Manchester UnitedMAN | → |  MiddlesbroughMID | Free |
| 06 Jul 16 | H. Mkhitaryan Henrikh Mkhitaryan |  Borussia DortmundDOR | → | Manchester UnitedMAN | Undisclosed |
| 06 Jul 16 | H. Mkhitaryan Henrikh Mkhitaryan | Borussia DortmundDOR | → | Manchester UnitedMAN | Undisclosed |
| 01 Jul 16 | Z. Ibrahimovic Zlatan Ibrahimovic |  Paris Saint-Germain PSG | → | Manchester UnitedMAN | Free |
| 01 Jul 16 | Z. Ibrahimovic Zlatan Ibrahimovic | Paris Saint-Germain PSG | → | Manchester UnitedMAN | Free |
| 01 Feb 16 | N. Powell Nick Powell | Manchester UnitedMAN | → | Hull CityHUL | Loan |
| 01 Feb 16 | N. Powell Nick Powell | Manchester UnitedMAN | → | Hull CityHUL | Loan |
| 26 Jan 16 | V. Valdés Víctor Valdés | Manchester UnitedMAN | → |  Standard LiegeSTL | Loan |
| 18 Jan 16 | L. Grimshaw Liam Grimshaw | Manchester UnitedMAN | → |  Preston North EndPNE | Undisclosed |
| 18 Jan 16 | L. Grimshaw Liam Grimshaw | Manchester UnitedMAN | → | Preston North EndPNE | Undisclosed |
| 11 Jan 16 | B. Pearson Ben Pearson | Manchester UnitedMAN | → | Preston North EndPNE | Undisclosed |
| 11 Jan 16 | B. Pearson Ben Pearson | Manchester UnitedMAN | → | Preston North EndPNE | Undisclosed |
| 07 Jan 16 | A. Fletcher Ashley Fletcher | Manchester UnitedMAN | → |  BarnsleyBAR | Loan |
| 02 Jan 16 | S. Johnstone Sam Johnstone | Manchester UnitedMAN | → | Preston North EndPNE | Loan |
| 02 Jan 16 | S. Johnstone Sam Johnstone | Manchester UnitedMAN | → | Preston North EndPNE | Loan |