| 2006 Rookie & Free Agent Draft | ||||||
| Pick | Day | Date | Team | Pos | Selection | NFL Team |
| 1.01 | Mon | 5/1 | Hooksett Hawks | RB | Reggie Bush | New Orleans |
| 1.02 | Tue | 5/2 | Raleigh Renegades | TE | Vernon Davis | San Francisco |
| 1.03 | Wed | 5/3 | Pittsburgh Pumas | RB | LenDale White | Tennessee |
| 1.04 | Thu | 5/4 | Carolina Mercury | RB | DeAngelo Williams | Carolina |
| 1.05 | Fri | 5/5 | Johnstown Rats | QB | Matt Leinart | Arizona |
| 1.06 | Mon | 5/8 | RAL (orig. NOE) | RB | Laurence Maroney | New England |
| 1.07 | Tue | 5/9 | Mississippi Kudzu Kings | RB | Joseph Addai | Indianapolis |
| 1.08 | Wed | 5/10 | FLA (orig. PEN) | QB | Vince Young | Tennessee |
| 1.09 | Thu | 5/11 | NOE (orig. CFL) | WR | Santonio Holmes | Pittsburgh |
| 1.10 | Fri | 5/12 | MIS (orig. CMB) | WR | Chad Jackson | New England |
| 1.11 | Mon | 5/15 | PEN (orig. FLA) | QB | Jay Cutler | Denver |
| 1.12 | Tue | 5/16 | Treasure Coast Sunday Punch | RB | Leon Washington | New York Jets |
| 1.13 | Wed | 5/17 | Palm Beach Pigskins | RB | Maurice Drew | Jacksonville |
| 1.14 | Thu | 5/18 | HKS (orig. BAY) | WR | Sinorice Moss | New York Giants |
| 1.15 | Fri | 5/19 | Colorado Cavaliers | RB | Ron Dayne | Denver |
| 1.16 | Mon | 5/22 | COL (orig. FTM) | TE | Mercedes Lewis | Jacksonville |
| ROUND 2 | ||||||
| 2.01 | Tue | 5/23 | MIS (orig. HKS) | RB | Jerious Norwood | Atlanta |
| 2.02 | Wed | 5/24 | NOE (orig. RAL) | QB | Kellen Clemens | New York Jets |
| 2.03 | Thu | 5/25 | Pittsburgh Pumas | WR | Michael Robinson | San Francisco |
| 2.04 | Fri | 5/26 | NOE (orig. CAR) | WR | Greg Jennings | Green Bay |
| 2.05 | Tue | 5/30 | Johnstown Rats | WR | Maurice Stovall | Tampa Bay |
| 2.06 | Wed | 5/31 | Noe Valley Mountain Lions | WR | Derek Hagan | Miami |
| 2.07 | Thu | 6/1 | Mississippi Kudzu Kings | RB | Brian Calhoun | Detroit |
| 2.08 | Fri | 6/2 | Pennsylvania Catamounts | Forfeit | ||
| 2.09 | Mon | 6/3 | Central Florida Orange Crush | QB | Charlie Whitehurst | San Diego |
| 2.10 | Tue | 6/6 | Columbia Dolfan | TE | Leonard Pope | Arizona |
| 2.11 | Wed | 6/7 | TRC (orig. FLA) | WR | Brandon Marshall | Denver |
| 2.12 | Thu | 6/8 | Treasure Coast Sunday Punch | QB | Brodie Croyle | Kansas City |
| 2.13 | Fri | 6/9 | Palm Beach Pigskins | WR | Willie Reid | Pittsburgh |
| 2.14 | Mon | 6/12 | PEN (orig. BAY) | WR | Ernest Wilford | Jacksonville |
| 2.15 | Tue | 6/13 | Colorado Cavaliers | QB | Tarvaris Jackson | Minnesota |
| 2.16 | Wed | 6/14 | Fort Myers Zombie Fandango | RB | Dominic Rhodes | Indianapolis |
| ROUND 3 | ||||||
| 3.01 | Thu | 6/15 | Hooksett Hawks | K | Stephen Gostkowski | New England |
| 3.02 | Fri | 6/16 | NOE (orig. RAL) | TE | Tony Scheffler | Denver |
| 3.03 | Mon | 6/19 | Pittsburgh Pumas | Forfeit | ||
| 3.04 | Tue | 6/20 | Carolina Mercury | WR | Travis Wilson | Cleveland |
| 3.05 | Wed | 6/21 | Johnstown Rats | WR | Brandon Jones | Tennessee |
| 3.06 | Thu | 6/22 | Noe Valley Mountain Lions | WR | Devin Hester | Chicago |
| 3.07 | Fri | 6/23 | Mississippi Kudzu Kings | RB | Jerome Harrison | Cleveland |
| 3.08 | Mon | 6/26 | Pennsylvania Catamounts | Forfeit | ||
| 3.09 | Tue | 6/27 | TRC (orig. CFL) | Forfeit | ||
| 3.10 | Wed | 6/28 | Columbia Dolfan | TE | Alex Smith | Tampa Bay |
| 3.11 | Thu | 6/29 | Florida All-Stars | Forfeit | ||
| 3.12 | Fri | 6/30 | Treasure Coast Sunday Punch | K | Josh Scobee | Jacksonville |
| 3.13 | Mon | 7/3 | Palm Beach Pigskins | D | New York Giants | NY Giants |
| 3.14 | Wed | 7/5 | Bay Area Quake | WR | Koren Robinson | Minnesota |
| 3.15 | Thu | 7/6 | Colorado Cavaliers | Forfeit | ||
| 3.16 | Fri | 7/7 | Fort Myers Zombie Fandango | TE | Zach Hilton | New Orleans |