| Round 5 | ||||
| Date/Time | Number | Team | Traded From | Selection |
| 2/4/06 12:15 PM | 1 | Sidewinders | Sluggers | JP Howell |
| 2/4/06 12:16 PM | 2 | Bandits | Travis Bowyer | |
| 2/4/06 12:17 PM | 3 | Phobics | Fernando Rodney | |
| 2/4/06 12:18 PM | 4 | Hysteria | Wandy Rodriguez | |
| 2/4/06 12:19 PM | 5 | Irish | Rick Helling | |
| 2/4/06 12:20 PM | 6 | Boulders | Shin-Soo Choo | |
| 2/4/06 12:21 PM | 7 | Drillers | Matt Belisle | |
| 2/4/06 12:22 PM | 8 | HiSox | Duaner Sanchez | |
| 2/4/06 12:23 PM | 9 | Commuters | Eduardo Perez | |
| 2/4/06 12:24 PM | 10 | Kangaroos | Travis Lee | |
| 2/4/06 12:25 PM | 11 | Blues | Doug Waechter | |
| 2/4/06 12:26 PM | 12 | Beasts | Aaron Small | |
| 2/4/06 12:27 PM | 13 | Hysteria | Scorpions | Lance Niekro |
| 2/4/06 12:28 PM | 14 | Peanuts | Adam Wainwright | |
| 2/4/06 12:29 PM | 15 | Anarchists | Yorman Bazardo | |
| 2/4/06 12:30 PM | 16 | Skeeters | Sal Fasano | |
| 2/4/06 12:31 PM | 17 | Buffalo Chips | Will Ohman | |
| 2/4/06 12:32 PM | 18 | Vipers | Junior Spivey | |
| 2/4/06 12:33 PM | 19 | Force | Marlon Byrd | |
| 2/4/06 12:34 PM | 20 | Hegelians | Nate McLouth | |
| 2/4/06 12:35 PM | 21 | Scorpions | Hens | Corey Patterson |
| 2/4/06 12:36 PM | 22 | Pinnipeds | Matt Diaz | |
| 2/4/06 12:37 PM | 23 | Sidewinders | Kelly Shoppach | |
| 2/4/06 12:38 PM | 24 | Scorpions | Synthesis | Tony Armas Jr. |