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| 2006-08-18 16:16:00 | Louisville Colonels | 1st round pick in season 14 | Acquired via trade | 1st round pick in season 15 | Seattle Cougars |
| 2006-08-18 16:16:00 | Louisville Colonels | 2nd round pick in season 14 | Acquired via trade | 2nd round pick in season 16 | Seattle Cougars |
| 2006-08-18 16:16:00 | Louisville Colonels | 2nd round pick in season 16 | Acquired via trade | | Seattle Cougars |
| 2006-08-18 16:14:00 | Los Angeles Cacti | 1st round pick in season 14 | Acquired via trade | Tex Kelly | San Francisco Golden Gators |
| 2006-08-18 16:14:00 | Los Angeles Cacti | 1st round pick in season 14 | Acquired via trade | | San Francisco Golden Gators |
| 2006-08-18 16:12:00 | Dallas Hounds | 1st round pick in season 14 | Acquired via trade | Fairleigh Rehm | Denver Ferris Wheels |
| 2006-08-18 16:12:00 | Dallas Hounds | 2nd round pick in season 14 | Acquired via trade | | Denver Ferris Wheels |
| 2006-08-18 16:10:00 | San Francisco Golden Gators | Kyle Willoughby | Acquired via trade | Solomon Gilkey | Indianapolis Tornadoes |
| 2006-08-18 16:08:00 | Portland Hipsters | Nathaniel Long | Acquired via trade | 2nd round pick in season 14 | Indianapolis Tornadoes |
| 2006-08-18 16:06:00 | Portland Hipsters | Isaiah Perdue | Acquired via trade | 1st round pick in season 14 | St. Louis 5th Alarm |
| 2006-08-18 16:06:00 | Portland Hipsters | Ricoh McDaniel | Acquired via trade | | St. Louis 5th Alarm |
| 2006-08-18 16:04:00 | Phoenix Kangaroos | T.J. Whittaker | Acquired via trade | Eric Wilston | Orlando Bombers |
| 2006-08-18 16:02:00 | Louisville Colonels | 2nd round pick in season 14 | Acquired via trade | Arnold Becker | Dallas Hounds |
| 2006-08-18 16:00:00 | Kansas City Wildcats | Tyron Spear | Acquired via trade | Mario Hutcherson | Sacramento Rainbow Trout |
| 2006-08-18 16:00:00 | Kansas City Wildcats | Quintin Crawford | Acquired via trade | | Sacramento Rainbow Trout |
| 2006-07-05 03:45:08 | San Francisco Golden Gators | Tommy Behrens | Add/Drop | Jawan Holsclaw | |
| 2006-07-04 01:22:34 | San Francisco Golden Gators | Jawan Holsclaw | Add/Drop | Isiah Whelan | |
| 2006-07-04 01:17:42 | San Francisco Golden Gators | Isiah Whelan | Add/Drop | Robert Calloway | |
| 2006-07-04 00:59:18 | San Francisco Golden Gators | Robert Calloway | Add/Drop | J.T. Goodin | |
| 2006-07-03 22:00:16 | New Orleans Hurricanes | | Drop | Jacques Henry | |
| 2006-07-02 16:00:00 | Charlotte Rangers | Giles Ross | Acquired via waivers | Taylor Furgason | Waiver |
| 2006-07-02 10:18:42 | Houston Octopods | | Drop | Leo Kemper | |
| 2006-06-28 22:34:32 | Indianapolis Tornadoes | | Drop | Charles Conway | |
| 2006-06-28 10:04:26 | Atlanta Eels | Roy Gbiv | Add/Drop | Isiah Whelan | |
| 2006-06-28 01:31:22 | Seattle Cougars | | Drop | Gordon Hannah | |