| Player in | From | Fee | Date |
| Dean Windass | Bradford City | Season-long loan* | 17/01/2007 |
| Nathan Doyle | Derby County | Nominal* | 31/01/2007 |
| Ray Parlour | Free | 09/02/2007 | |
| Ricardo Vaz Te | Bolton Wanderers | One-month loan | 09/03/2007 |
| Lee Peltier | Liverpool | Season-long loan | 16/03/2007 |
| Dean Windass | Bradford City | £150,000* | 19/06/2007 |
| Bryan Hughes | Charlton Athletic | Free | 29/06/2007 |
| Richard Garcia | Colchester United | Free | 02/07/2007 |
| Wayne Brown | Colchester United | £450,000 | 14/07/2007 |
| Henrik Pedersen | Free | 13/08/2007 | |
| Caleb Folan | Wigan Athletic | £1,000,000* | 31/08/2007 |
| Jay Jay Okocha | Free | ||
| Fraizer Campbell | Manchester United | Season-long loan | |
| Player out | To | Fee | Date |
| Alton Thelwell | Leyton Orient | £50,000* | 03/01/2007 |
| Craig Fagan | Derby County | £750,000* | 10/01/2007 |
| Scott Wiseman | Darlington | Season-long loan | 09/03/2007 |
| Jon Parkin | Stoke City | Loan | 09/03/2007 |
| Michael Byron | Notts County | Season-long loan | 16/03/2007 |
| Darryl Duffy | Swansea City | Season-long loan | 21/03/2007 |
| Ray Parlour | Released | 06/05/2007 | |
| Michael Byron | Released | 11/05/2007 | |
| Russell Fry | Released | 11/05/2007 | |
| Tom Matthews | Released | 11/05/2007 | |
| Scott Wiseman | Darlington | Free | 24/05/2007 |
| Jon Parkin | Stoke City | £275,000* | 21/06/2007 |
| Curtis Aspden | Harrogate Town | Loan | 25/06/2007 |
| Nicky Forster | Brighton & Hove Albion | £75,000 | 25/06/2007 |
| Darryl Duffy | Swansea City | £200,000* | 09/07/2007 |
| Sam Collins | Swindon Town | One-month loan | 28/09/2007 |
| Danny Coles | Hartlepool United | One-month loan | 01/10/2007 |
| Will Atkinson | Port Vale | One-month loan | 12/10/2007 |
| Michael Bridges | Sydney | Loan | |
| Danny Coles | Bristol Rovers | Three-month loan | 01/11/2007 |
| Curtis Aspden | Boston United | One-month loan | 06/12/2007 |
Thelwell - an initital £25,000 and further £25,000 after Leyton Orient avoided relegation in 2006/07.
Fagan - City received £750,000 up front and additional undisclosed payment after Derby achieved promotion in 2006/07.
Windass - City paid Bradford one-off fee for loan deal. Transfer fee rises depending on appearances.
Doyle - fee rises depending on appearances.
Parkin - fee rises to £450,000 depending on player's and club's success.
Duffy - fee rises to £300,000 depending on player's and club's success.
Folan - partly funded (£250,000) by Coca-Cola 'Buy a player' promotion. Fee rises to £1,250,000 depending on appearances and other incentives.