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| 2006-10-07 23:39:36 | San Antonio Brothas | Wally Lacefield | Add/Drop | | |
| 2006-10-07 23:10:44 | San Antonio Brothas | | Drop | Dylan Bratcher | |
| 2006-10-07 22:52:34 | San Antonio Brothas | Dylan Bratcher | Add/Drop | Isiah Whelan | |
| 2006-10-07 22:43:36 | San Antonio Brothas | | Drop | Gregor Davies | |
| 2006-10-07 18:08:00 | Los Angeles Cacti | 1st round pick in season 15 | Acquired via trade | Shane Meek | Cleveland Weasels |
| 2006-10-07 18:08:00 | Los Angeles Cacti | 1st round pick in season 16 | Acquired via trade | Samuel Hess | Cleveland Weasels |
| 2006-10-07 18:08:00 | Los Angeles Cacti | Jamal Bickett | Acquired via trade | | Cleveland Weasels |
| 2006-10-07 18:06:00 | Phoenix Kangaroos | 1st round pick in season 15 | Acquired via trade | Herschel Eads | Houston Octopods |
| 2006-10-07 18:06:00 | Phoenix Kangaroos | 1st round pick in season 15 | Acquired via trade | | Houston Octopods |
| 2006-10-07 18:06:00 | Phoenix Kangaroos | Al Lipscomb | Acquired via trade | | Houston Octopods |
| 2006-10-07 18:04:00 | Memphis Express | Jarvis Willman | Acquired via trade | 1st round pick in season 16 | Indianapolis Tornadoes |
| 2006-10-07 18:02:00 | Phoenix Kangaroos | 1st round pick in season 16 | Acquired via trade | Irwin Baugh | Minneapolis Bricklayers |
| 2006-10-07 18:02:00 | Phoenix Kangaroos | 1st round pick in season 17 | Acquired via trade | 1st round pick in season 16 | Minneapolis Bricklayers |
| 2006-10-07 18:02:00 | Phoenix Kangaroos | Dammel Wreckage | Acquired via trade | | Minneapolis Bricklayers |
| 2006-10-07 18:00:00 | Sacramento Rainbow Trout | Giles Ross | Acquired via trade | 2nd round pick in season 16 | Charlotte Rangers |
| 2006-10-07 14:53:14 | Indianapolis Tornadoes | Jed Sauer | Add/Drop | | |
| 2006-10-06 16:40:00 | Portland Hipsters | Ricky Ogburn | Acquired via trade | 1st round pick in season 15 | Dallas Hounds |
| 2006-10-06 16:40:00 | Portland Hipsters | Leo Heath | Acquired via trade | | Dallas Hounds |
| 2006-10-06 14:31:58 | Houston Octopods | Zeke Pfister | Add/Drop | Herbert Benton | |
| 2006-10-06 14:25:12 | Portland Hipsters | | Drop | Heinrich Oates | |
| 2006-10-06 14:22:52 | Portland Hipsters | | Drop | Jay Slater | |
| 2006-10-06 08:51:24 | Atlanta Eels | Vince Isaac | Add/Drop | | |
| 2006-10-06 02:43:00 | Cleveland Weasels | Gordon Hannah | Add/Drop | Kincaid Dennison | |
| 2006-10-05 18:40:00 | Louisville Colonels | Norman Link | Acquired via waivers | Dion Derr | Waiver |
| 2006-10-05 18:40:00 | Atlanta Eels | Luc Koch | Acquired via waivers | Sherm Braun | Waiver |