| year | team name | league | level | g | w | l | wpct | gbl | rf | ra | diff | rank | lg rk | manager | ballpark | location | playoffs |
| 2006 | Philadelphia Phillies | NL | MLB | 162 | 85 | 77 | .525 | 12.0 | 865 | 812 | 53 | 2 | 4 | Charlie Manuel | Citizens Bank Park | Philadelphia,Pennsylvania | dnq |
| 2006 | Scranton/Wilkes-Barre Red Barons | IL | AAA | 142 | 84 | 58 | .592 | - | 574 | 503 | 71 | 1 | 1 | John Russell | Lackawanna County Stadium | Scranton,Pennsylvania | Lost in 1st Round |
| 2006 | Reading Phillies | East | AA | 140 | 71 | 69 | .507 | 15.0 | 612 | 595 | 17 | 3 | 5 | P.J. Forbes | FirstEnergy Stadium | Reading,Pennsylvania | - |
| 2006 | Clearwater Threshers | FSL | A+ | 139 | 67 | 72 | .482 | 12.5 | 630 | 639 | -9 | 5 | 9 | Greg Legg | Bright House Field | Clearwater,Florida | - |
| 2006 | Lakewood BlueClaws | SAL | A | 139 | 84 | 55 | .604 | - | 637 | 509 | 128 | 1 | 2 | Dave Huppert | FirstEnergy Park | Lakewood,New Jersey | League Champions |
| 2006 | Batavia Muckdogs | NYPL | A- | 73 | 35 | 38 | .479 | 6.5 | 289 | 254 | 35 | 4 | 10 | Steve Roadcap | Dwyer Stadium | Batavia,New York | - |
| 2006 | Gulf Coast Phillies | GCL | Rk | 49 | 18 | 31 | .367 | 14.5 | 180 | 275 | -95 | 3 | 12 | Jim Morris | Carpenter Complex | - | |
| Tot: | Full Organization | 844 | 444 | 400 | .526 | 3787 | 3587 | 200 |