2006 MLS Expansion Draft Transactions
| Overall # | Team | Player Drafted |
| Round 1 | ||
| 1 |  Toronto FC |
Paulo Nagamura |
| 2 | Toronto FC |
Danny O'Rourke |
| 3 | Toronto FC |
José Cancela |
| 4 | Toronto FC |
Adrian Serioux |
| 5 | Toronto FC |
Nate Jaqua |
| 6 | Toronto FC |
Rod Dyachenko |
| 7 | Toronto FC |
Jason Kreis |
| 8 | Toronto FC |
Tim Regan |
| 9 | Toronto FC |
Ritchie Kotschau |
| 10 | Toronto FC |
Will Hesmer |