Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 08/2006 |  | Jesús Morales | FW |  | Deportivo Guadalajara | CD Guadalajara |
| 07/2006 | | Carlos Borja | MF | |||
| 07/2006 | | Johnny García | DF | | Deportivo Guadalajara | CD Guadalajara |
| 07/2006 |  | Eder Robles | DF | |||
| 07/2006 | | Rene Corona | MF | |||
| 01/2006 | | Jonathan Bornstein | DF | |||
| 01/2006 | | Sacha Kljestan | MF | |||
| 01/2006 | | Preston Burpo | GK | |||
| 01/2006 |  | Jason Hernández | DF |  | New York RB | New York RB |
| 01/2006 | | Carlos Llamosa | DF |  | New England Revolution | New Engl. |
| 01/2006 | | John O'Brien | DF |  | ADO Den Haag | ADO Den Haag |
| 01/2006 | | Tim Regan | DF | | New York RB | New York RB |
| 01/2006 | | Claudio Suárez | DF |  | UANL Tigres | Tigres |
| 01/2006 | | Lawson Vaughn | DF | |||
| 01/2006 | | Jesse Marsch | MF |  | Chicago Fire | Chicago Fire |
| 01/2006 | | Brent Whitfield | MF | |||
| 01/2006 | | Drew Helm | FW | |||
| 01/2006 | | Ante Razov | FW | | New York RB | New York RB |
| 01/2006 | | Estuardo Sanchez | FW | |||
| 01/2006 | | Preki Radosavljevic | AS-CO |  | Sporting Kansas City | Kansas City |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 01/2006 |  | Ezra Hendrickson | DF |  | Columbus Crew | Columbus Crew |
| 01/2006 |  | Douglas Sequeira | DF |  | Real Salt Lake | Salt Lake |
| 01/2006 | | Milton Blanco | MF |  | Puerto Rico Islanders | Islanders |
| 01/2006 | | Héctor Castro | MF | | Deportivo Guadalajara | CD Guadalajara |
| 01/2006 | | Michael Erush | MF |  | Fort Lauderdale Strikers | Ft. Lauderdale |
| 01/2006 | | Christian Jimenez | MF | | Real Salt Lake | Salt Lake |
| 01/2006 | | Isaac Romo | FW |  | Gallos Blancos | Querétaro |
| 01/2006 |  | Thiago Martins | FW | | New York RB | New York RB |