| 2006-04-04 | vs MIN | 1 | W 6-3 | 1-0 | 2 | 50,449 | Roy Halladay | Johan Santana | Roy Halladay | Johan Santana | B.J. Ryan | 6 | 3 | 3 |
| 2006-04-05 | vs MIN | 2 | L 4-13 | 1-1 | 3 | 18,156 | Josh Towers | Brad Radke | Brad Radke | Josh Towers | | 10 | 16 | -6 |
| 2006-04-06 | vs MIN | 3 | W 6-3 | 2-1 | 3 | 16,221 | Gustavo Chacin | Carlos Silva | Gustavo Chacin | Carlos Silva | B.J. Ryan | 16 | 19 | -3 |
| 2006-04-07 | vs TBA | 4 | L 8-9 | 2-2 | 4 | 15,631 | Scott Downs | Casey Fossum | Scott Dunn | Pete Walker | Dan Miceli | 24 | 28 | -4 |
| 2006-04-08 | vs TBA | 5 | W 8-4 | 3-2 | 2 | 18,755 | Ted Lilly | Doug Waechter | Brian Tallet | Jason Childers | | 32 | 32 | 0 |
| 2006-04-09 | vs TBA | 6 | L 2-5 | 3-3 | 3 | 20,184 | Roy Halladay | Scott Kazmir | Scott Kazmir | Roy Halladay | Dan Miceli | 34 | 37 | -3 |
| 2006-04-11 | @ BOS | 7 | L 3-5 | 3-4 | 4 | 35,491 | Josh Towers | Josh Beckett | Josh Beckett | Josh Towers | Jonathan Papelbon | 37 | 42 | -5 |
| 2006-04-12 | @ BOS | 8 | W 8-4 | 4-4 | 3 | 36,378 | Gustavo Chacin | David Wells | Gustavo Chacin | David Wells | | 45 | 46 | -1 |
| 2006-04-13 | @ BOS | 9 | W 8-6 | 5-4 | 3 | 36,524 | Ted Lilly | Matt Clement | Ted Lilly | Matt Clement | B.J. Ryan | 53 | 52 | 1 |
| 2006-04-14 | @ CHA | 10 | W 13-7 | 6-4 | 2 | 31,418 | Scott Downs | Javier Vazquez | Pete Walker | Javier Vazquez | | 66 | 59 | 7 |
| 2006-04-15 | @ CHA | 11 | L 2-4 | 6-5 | 3 | 33,247 | A.J. Burnett | Mark Buehrle | Mark Buehrle | A.J. Burnett | Bobby Jenks | 68 | 63 | 5 |
| 2006-04-16 | @ CHA | 12 | L 4-6 | 6-6 | 5 | 27,137 | Josh Towers | Freddy Garcia | Freddy Garcia | Josh Towers | | 72 | 69 | 3 |
| 2006-04-18 | vs NYA | 13 | W 10-5 | 7-6 | 2 | 48,776 | Gustavo Chacin | Randy Johnson | Gustavo Chacin | Randy Johnson | | 82 | 74 | 8 |
| 2006-04-19 | vs NYA | 14 | L 1-3 | 7-7 | 4 | 32,886 | Ted Lilly | Mike Mussina | Mike Mussina | Ted Lilly | Mariano Rivera | 83 | 77 | 6 |
| 2006-04-21 | vs BOS | 15 | W 7-6 | 8-7 | 3 | 28,333 | A.J. Burnett | Josh Beckett | Justin Speier | Keith Foulke | | 90 | 83 | 7 |
| 2006-04-22 | vs BOS | 16 | W 8-1 | 9-7 | 3 | 34,387 | Roy Halladay | Lenny DiNardo | Roy Halladay | Lenny DiNardo | Pete Walker | 98 | 84 | 14 |
| 2006-04-23 | vs BOS | 17 | L 3-6 | 9-8 | 4 | 28,737 | Josh Towers | Matt Clement | Matt Clement | Josh Towers | Jonathan Papelbon | 101 | 90 | 11 |
| 2006-04-25 | vs BAL | 18 | W 7-3 | 10-8 | 3 | 32,257 | Gustavo Chacin | Rodrigo Lopez | Gustavo Chacin | Rodrigo Lopez | | 108 | 93 | 15 |
| 2006-04-26 | vs BAL | 19 | W 8-2 | 11-8 | 2 | 19,336 | Ted Lilly | Erik Bedard | Ted Lilly | Erik Bedard | | 116 | 95 | 21 |
| 2006-04-27 | vs BAL | 20 | L 5-7 | 11-9 | 3 | 18,756 | Casey Janssen | Kris Benson | Kris Benson | Casey Janssen | | 121 | 102 | 19 |
| 2006-04-28 | @ NYA | 21 | W 7-2 | 12-9 | 1 | 47,204 | Roy Halladay | Jaret Wright | Roy Halladay | Jaret Wright | B.J. Ryan | 128 | 104 | 24 |
| 2006-04-29 | @ NYA | 22 | L 6-17 | 12-10 | 3 | 50,119 | Josh Towers | Randy Johnson | Randy Johnson | Josh Towers | | 134 | 121 | 13 |
| 2006-04-30 | @ NYA | 23 | L 1-4 | 12-11 | 3 | 52,954 | Gustavo Chacin | Mike Mussina | Mike Mussina | Gustavo Chacin | Mariano Rivera | 135 | 125 | 10 |
| 2006-05-01 | @ BAL | 24 | W 9-7 | 13-11 | 3 | 14,315 | Ted Lilly | Erik Bedard | Ted Lilly | LaTroy Hawkins | B.J. Ryan | 144 | 132 | 12 |
| 2006-05-02 | @ BAL | 25 | L 2-9 | 13-12 | 3 | 15,795 | Casey Janssen | Kris Benson | Kris Benson | Casey Janssen | Todd Williams | 146 | 141 | 5 |
| 2006-05-03 | @ BOS | 26 | W 7-6 | 14-12 | 3 | 35,881 | Roy Halladay | Josh Beckett | Dustin McGowan | Jonathan Papelbon | B.J. Ryan | 153 | 147 | 6 |
| 2006-05-04 | @ BOS | 27 | L 4-7 | 14-13 | 3 | 36,396 | Josh Towers | Matt Clement | Matt Clement | Josh Towers | Jonathan Papelbon | 157 | 154 | 3 |
| 2006-05-05 | vs ANA | 28 | W 13-3 | 15-13 | 3 | 22,227 | Gustavo Chacin | Ervin Santana | Gustavo Chacin | Ervin Santana | | 170 | 157 | 13 |
| 2006-05-06 | vs ANA | 29 | L 0-3 | 15-14 | 3 | 29,761 | Ted Lilly | Kelvim Escobar | Kelvim Escobar | Ted Lilly | Francisco Rodriguez | 170 | 160 | 10 |
| 2006-05-07 | vs ANA | 30 | W 3-1 | 16-14 | 3 | 24,351 | Casey Janssen | John Lackey | Casey Janssen | John Lackey | B.J. Ryan | 173 | 161 | 12 |
| 2006-05-08 | vs ANA | 31 | W 5-1 | 17-14 | 3 | 18,611 | Roy Halladay | Jeff Weaver | Roy Halladay | Jeff Weaver | | 178 | 162 | 16 |
| 2006-05-09 | vs OAK | 32 | L 5-6 | 17-15 | 3 | 36,269 | Josh Towers | Dan Haren | Dan Haren | Josh Towers | Huston Street | 183 | 168 | 15 |
| 2006-05-10 | vs OAK | 33 | W 9-7 | 18-15 | 3 | 19,269 | Gustavo Chacin | Joe Blanton | Francisco Rosario | Joe Blanton | B.J. Ryan | 192 | 175 | 17 |
| 2006-05-11 | vs OAK | 34 | W 8-3 | 19-15 | 3 | 23,974 | Ted Lilly | Kirk Saarloos | Ted Lilly | Kirk Saarloos | | 200 | 178 | 22 |
| 2006-05-12 | @ TBA | 35 | L 1-4 | 19-16 | 3 | 11,816 | Casey Janssen | Seth McClung | Seth McClung | Casey Janssen | Tyler Walker | 201 | 182 | 19 |
| 2006-05-13 | @ TBA | 36 | W 8-1 | 20-16 | 3 | 15,184 | Roy Halladay | Mark Hendrickson | Roy Halladay | Mark Hendrickson | | 209 | 183 | 26 |
| 2006-05-14 | @ TBA | 37 | W 8-3 | 21-16 | 3 | 12,224 | Josh Towers | Casey Fossum | Josh Towers | Casey Fossum | | 217 | 186 | 31 |
| 2006-05-16 | @ ANA | 38 | L 3-8 | 21-17 | 3 | 43,066 | Ted Lilly | Ervin Santana | Ervin Santana | Ted Lilly | | 220 | 194 | 26 |
| 2006-05-17 | @ ANA | 39 | W 3-0 | 22-17 | 3 | 38,767 | Casey Janssen | Kelvim Escobar | Casey Janssen | Kelvim Escobar | B.J. Ryan | 223 | 194 | 29 |
| 2006-05-18 | @ ANA | 40 | W 8-4 | 23-17 | 3 | 37,850 | Roy Halladay | John Lackey | Jason Frasor | Francisco Rodriguez | | 231 | 198 | 33 |
| 2006-05-19 | @ COL | 41 | L 3-8 | 23-18 | 3 | 26,011 | Josh Towers | Aaron Cook | Aaron Cook | Josh Towers | | 234 | 206 | 28 |
| 2006-05-20 | @ COL | 42 | L 1-5 | 23-19 | 3 | 26,212 | Ty Taubenheim | Jeff Francis | Jeff Francis | Ty Taubenheim | | 235 | 211 | 24 |
| 2006-05-21 | @ COL | 43 | L 3-5 | 23-20 | 3 | 30,291 | Ted Lilly | Josh Fogg | Josh Fogg | Ted Lilly | Brian Fuentes | 238 | 216 | 22 |
| 2006-05-22 | vs TBA | 44 | W 6-4 | 24-20 | 3 | 22,563 | Casey Janssen | Seth McClung | Casey Janssen | Seth McClung | B.J. Ryan | 244 | 220 | 24 |
| 2006-05-23 | vs TBA | 45 | W 4-1 | 25-20 | 3 | 34,594 | Roy Halladay | Mark Hendrickson | Roy Halladay | Mark Hendrickson | B.J. Ryan | 248 | 221 | 27 |
| 2006-05-24 | vs TBA | 46 | L 8-10 | 25-21 | 3 | 20,187 | Josh Towers | Casey Fossum | Shawn Camp | Jason Frasor | Tyler Walker | 256 | 231 | 25 |
| 2006-05-26 | vs CHA | 47 | W 8-2 | 26-21 | 3 | 22,729 | Ted Lilly | Freddy Garcia | Ted Lilly | Freddy Garcia | | 264 | 233 | 31 |
| 2006-05-27 | vs CHA | 48 | W 3-2 | 27-21 | 3 | 30,063 | Casey Janssen | Jose Contreras | Scott Schoeneweis | Jeff Nelson | | 267 | 235 | 32 |
| 2006-05-28 | vs CHA | 49 | L 5-7 | 27-22 | 3 | 35,277 | Ty Taubenheim | Jon Garland | Jon Garland | Ty Taubenheim | Bobby Jenks | 272 | 242 | 30 |
| 2006-05-29 | vs BOS | 50 | W 7-6 | 28-22 | 3 | 24,038 | Roy Halladay | Matt Clement | B.J. Ryan | David Riske | | 279 | 248 | 31 |
| 2006-05-30 | vs BOS | 51 | W 8-5 | 29-22 | 3 | 27,324 | Gustavo Chacin | Josh Beckett | Gustavo Chacin | Josh Beckett | B.J. Ryan | 287 | 253 | 34 |
| 2006-05-31 | vs BOS | 52 | L 6-8 | 29-23 | 3 | 24,526 | Ted Lilly | David Pauley | Jermaine Van Buren | Ted Lilly | Jonathan Papelbon | 293 | 261 | 32 |
| 2006-06-02 | @ TBA | 53 | W 13-4 | 30-23 | 3 | 9,463 | Casey Janssen | Seth McClung | Casey Janssen | Seth McClung | | 306 | 265 | 41 |
| 2006-06-03 | @ TBA | 54 | W 6-2 | 31-23 | 3 | 15,696 | Roy Halladay | Mark Hendrickson | Roy Halladay | Mark Hendrickson | B.J. Ryan | 312 | 267 | 45 |
| 2006-06-04 | @ TBA | 55 | L 5-10 | 31-24 | 3 | 14,347 | Gustavo Chacin | Doug Waechter | Doug Waechter | Gustavo Chacin | | 317 | 277 | 40 |
| 2006-06-05 | @ BAL | 56 | L 0-4 | 31-25 | 3 | 15,185 | Ted Lilly | Daniel Cabrera | Daniel Cabrera | Ted Lilly | | 317 | 281 | 36 |
| 2006-06-06 | @ BAL | 57 | W 6-4 | 32-25 | 3 | 16,868 | Ty Taubenheim | Erik Bedard | Scott Downs | Chris Britton | B.J. Ryan | 323 | 285 | 38 |
| 2006-06-07 | @ BAL | 58 | W 5-3 | 33-25 | 3 | 15,803 | Casey Janssen | Kris Benson | Casey Janssen | Kris Benson | B.J. Ryan | 328 | 288 | 40 |
| 2006-06-08 | @ BAL | 59 | L 5-7 | 33-26 | 3 | 17,637 | Roy Halladay | Adam Loewen | Kurt Birkins | Francisco Rosario | Chris Ray | 333 | 295 | 38 |
| 2006-06-09 | vs DET | 60 | W 10-5 | 34-26 | 3 | 21,425 | Gustavo Chacin | Jeremy Bonderman | Jason Frasor | Todd Jones | | 343 | 300 | 43 |
| 2006-06-10 | vs DET | 61 | L 3-5 | 34-27 | 3 | 27,021 | Ted Lilly | Zach Miner | Zach Miner | Ted Lilly | Todd Jones | 346 | 305 | 41 |
| 2006-06-11 | vs DET | 62 | L 5-10 | 34-28 | 3 | 30,404 | Ty Taubenheim | Nate Robertson | Nate Robertson | Ty Taubenheim | Joel Zumaya | 351 | 315 | 36 |
| 2006-06-12 | vs BAL | 63 | L 4-6 | 34-29 | 3 | 17,876 | Casey Janssen | Kris Benson | Kris Benson | Casey Janssen | Chris Ray | 355 | 321 | 34 |
| 2006-06-13 | vs BAL | 64 | W 7-1 | 35-29 | 3 | 20,766 | Roy Halladay | Adam Loewen | Roy Halladay | Adam Loewen | | 362 | 322 | 40 |
| 2006-06-14 | vs BAL | 65 | W 6-3 | 36-29 | 3 | 23,325 | Scott Downs | Rodrigo Lopez | Vinnie Chulk | Rodrigo Lopez | B.J. Ryan | 368 | 325 | 43 |
| 2006-06-15 | vs BAL | 66 | W 4-2 | 37-29 | 3 | 32,285 | Ted Lilly | Daniel Cabrera | Ted Lilly | Daniel Cabrera | B.J. Ryan | 372 | 327 | 45 |
| 2006-06-16 | @ FLO | 67 | L 1-3 | 37-30 | 3 | 10,242 | Ty Taubenheim | Scott Olsen | Scott Olsen | Ty Taubenheim | Taylor Tankersley | 373 | 330 | 43 |
| 2006-06-17 | @ FLO | 68 | L 2-8 | 37-31 | 3 | 12,099 | Casey Janssen | Brian Moehler | Brian Moehler | Casey Janssen | | 375 | 338 | 37 |
| 2006-06-18 | @ FLO | 69 | L 1-4 | 37-32 | 3 | 10,536 | Roy Halladay | Josh Johnson | Josh Johnson | Roy Halladay | Joe Borowski | 376 | 342 | 34 |
| 2006-06-20 | @ ATL | 70 | W 6-5 | 38-32 | 3 | 26,915 | Josh Towers | Jorge Sosa | Scott Schoeneweis | Tyler Yates | B.J. Ryan | 382 | 347 | 35 |
| 2006-06-21 | @ ATL | 71 | W 6-3 | 39-32 | 3 | 26,232 | Ted Lilly | Tim Hudson | Ted Lilly | Tim Hudson | B.J. Ryan | 388 | 350 | 38 |
| 2006-06-22 | @ ATL | 72 | W 3-2 | 40-32 | 3 | 26,829 | A.J. Burnett | Horacio Ramirez | Ty Taubenheim | Mike Remlinger | B.J. Ryan | 391 | 352 | 39 |
| 2006-06-23 | vs NYN | 73 | L 1-6 | 40-33 | 3 | 28,507 | Casey Janssen | Tom Glavine | Tom Glavine | Casey Janssen | | 392 | 358 | 34 |
| 2006-06-24 | vs NYN | 74 | W 7-4 | 41-33 | 3 | 31,327 | Roy Halladay | Orlando Hernandez | Roy Halladay | Orlando Hernandez | B.J. Ryan | 399 | 362 | 37 |
| 2006-06-25 | vs NYN | 75 | L 4-7 | 41-34 | 3 | 32,277 | Josh Towers | Steve Trachsel | Steve Trachsel | Josh Towers | Billy Wagner | 403 | 369 | 34 |
| 2006-06-27 | vs WAS | 76 | W 6-0 | 42-34 | 3 | 20,288 | A.J. Burnett | Ramon Ortiz | A.J. Burnett | Ramon Ortiz | | 409 | 369 | 40 |
| 2006-06-28 | vs WAS | 77 | W 6-1 | 43-34 | 3 | 17,067 | Ted Lilly | Shawn Hill | Ted Lilly | Shawn Hill | | 415 | 370 | 45 |
| 2006-06-29 | vs WAS | 78 | W 8-4 | 44-34 | 3 | 17,175 | Roy Halladay | John Patterson | Roy Halladay | John Patterson | | 423 | 374 | 49 |
| 2006-06-30 | vs PHI | 79 | W 8-1 | 45-34 | 3 | 17,311 | Casey Janssen | Adam Bernero | Casey Janssen | Adam Bernero | | 431 | 375 | 56 |
| 2006-07-01 | vs PHI | 80 | W 5-2 | 46-34 | 3 | 24,248 | Ty Taubenheim | Cory Lidle | Scott Downs | Cory Lidle | B.J. Ryan | 436 | 377 | 59 |
| 2006-07-02 | vs PHI | 81 | L 6-11 | 46-35 | 3 | 26,177 | A.J. Burnett | Aaron Fultz | Geoff Geary | A.J. Burnett | | 442 | 388 | 54 |
| 2006-07-03 | @ TEX | 82 | L 1-6 | 46-36 | 3 | 30,021 | Ted Lilly | John Rheinecker | John Rheinecker | Ted Lilly | | 443 | 394 | 49 |
| 2006-07-04 | @ TEX | 83 | W 3-2 | 47-36 | 3 | 42,255 | Roy Halladay | John Koronka | Roy Halladay | John Koronka | B.J. Ryan | 446 | 396 | 50 |
| 2006-07-05 | @ TEX | 84 | L 3-9 | 47-37 | 3 | 25,803 | Casey Janssen | Vicente Padilla | Vicente Padilla | Casey Janssen | Francisco Cordero | 449 | 405 | 44 |
| 2006-07-06 | @ KCA | 85 | L 2-6 | 47-38 | 3 | 10,858 | Ty Taubenheim | Mark Redman | Mark Redman | Ty Taubenheim | | 451 | 411 | 40 |
| 2006-07-07 | @ KCA | 86 | L 3-13 | 47-39 | 3 | 17,162 | A.J. Burnett | Luke Hudson | Luke Hudson | A.J. Burnett | | 454 | 424 | 30 |
| 2006-07-08 | @ KCA | 87 | W 7-5 | 48-39 | 3 | 22,635 | Ted Lilly | Scott Elarton | Brian Tallet | Joel Peralta | B.J. Ryan | 461 | 429 | 32 |
| 2006-07-09 | @ KCA | 88 | W 11-3 | 49-39 | 3 | 17,748 | Roy Halladay | Jimmy Gobble | Roy Halladay | Jimmy Gobble | | 472 | 432 | 40 |
| 2006-07-14 | vs SEA | 89 | L 3-5 | 49-40 | 3 | 23,443 | Casey Janssen | Gil Meche | Gil Meche | Casey Janssen | J.J. Putz | 475 | 437 | 38 |
| 2006-07-15 | vs SEA | 90 | W 7-6 | 50-40 | 3 | 36,069 | Roy Halladay | Jamie Moyer | Scott Downs | Emiliano Fruto | | 482 | 443 | 39 |
| 2006-07-16 | vs SEA | 91 | W 4-3 | 51-40 | 3 | 28,679 | A.J. Burnett | Felix Hernandez | Scott Downs | George Sherrill | | 486 | 446 | 40 |
| 2006-07-17 | vs TEX | 92 | W 10-1 | 52-40 | 3 | 16,872 | Ted Lilly | John Koronka | Ted Lilly | John Koronka | | 496 | 447 | 49 |
| 2006-07-18 | vs TEX | 93 | L 2-5 | 52-41 | 3 | 20,017 | Shaun Marcum | Vicente Padilla | Vicente Padilla | Scott Schoeneweis | Akinori Otsuka | 498 | 452 | 46 |
| 2006-07-19 | vs TEX | 94 | L 4-5 | 52-42 | 3 | 20,778 | Casey Janssen | Kevin Millwood | Kevin Millwood | Casey Janssen | Akinori Otsuka | 502 | 457 | 45 |
| 2006-07-20 | vs NYA | 95 | W 5-4 | 53-42 | 3 | 42,336 | Roy Halladay | Mike Mussina | Brian Tallet | Mariano Rivera | | 507 | 461 | 46 |
| 2006-07-21 | vs NYA | 96 | W 7-3 | 54-42 | 3 | 40,149 | A.J. Burnett | Jaret Wright | A.J. Burnett | Jaret Wright | Scott Schoeneweis | 514 | 464 | 50 |
| 2006-07-22 | vs NYA | 97 | L 4-5 | 54-43 | 3 | 50,014 | Ted Lilly | Chien-Ming Wang | Chien-Ming Wang | Scott Downs | Mariano Rivera | 518 | 469 | 49 |
| 2006-07-23 | vs NYA | 98 | W 13-5 | 55-43 | 3 | 42,337 | Shaun Marcum | Sidney Ponson | Shaun Marcum | Sidney Ponson | | 531 | 474 | 57 |
| 2006-07-24 | @ SEA | 99 | L 3-7 | 55-44 | 3 | 29,787 | Casey Janssen | Joel Pineiro | Joel Pineiro | Casey Janssen | | 534 | 481 | 53 |
| 2006-07-25 | @ SEA | 100 | W 12-3 | 56-44 | 3 | 30,793 | Roy Halladay | Gil Meche | Roy Halladay | Gil Meche | | 546 | 484 | 62 |
| 2006-07-26 | @ SEA | 101 | L 4-7 | 56-45 | 3 | 33,629 | A.J. Burnett | Jamie Moyer | Jamie Moyer | A.J. Burnett | J.J. Putz | 550 | 491 | 59 |
| 2006-07-27 | @ OAK | 102 | L 2-5 | 56-46 | 3 | 19,251 | Ted Lilly | Joe Blanton | Joe Blanton | Ted Lilly | Huston Street | 552 | 496 | 56 |
| 2006-07-28 | @ OAK | 103 | W 4-3 | 57-46 | 3 | 22,217 | Shaun Marcum | Esteban Loaiza | Scott Downs | Esteban Loaiza | B.J. Ryan | 556 | 499 | 57 |
| 2006-07-29 | @ OAK | 104 | L 4-7 | 57-47 | 3 | 25,627 | Dustin McGowan | Barry Zito | Barry Zito | Dustin McGowan | Huston Street | 560 | 506 | 54 |
| 2006-07-30 | @ OAK | 105 | L 5-6 | 57-48 | 3 | 29,709 | Roy Halladay | Shane Komine | Huston Street | B.J. Ryan | | 565 | 512 | 53 |
| 2006-08-01 | @ NYA | 106 | L 1-5 | 57-49 | 3 | 52,237 | A.J. Burnett | Jaret Wright | Jaret Wright | A.J. Burnett | | 566 | 517 | 49 |
| 2006-08-02 | @ NYA | 107 | L 2-7 | 57-50 | 3 | 54,414 | Ted Lilly | Chien-Ming Wang | Chien-Ming Wang | Ted Lilly | | 568 | 524 | 44 |
| 2006-08-03 | @ NYA | 108 | L 1-8 | 57-51 | 3 | 52,156 | Shaun Marcum | Cory Lidle | Cory Lidle | Shaun Marcum | | 569 | 532 | 37 |
| 2006-08-04 | vs CHA | 109 | L 4-6 | 57-52 | 3 | 30,060 | Roy Halladay | Jon Garland | Jon Garland | Roy Halladay | Bobby Jenks | 573 | 538 | 35 |
| 2006-08-05 | vs CHA | 110 | L 1-7 | 57-53 | 3 | 35,117 | Francisco Rosario | Javier Vazquez | Javier Vazquez | Francisco Rosario | | 574 | 545 | 29 |
| 2006-08-06 | vs CHA | 111 | W 7-3 | 58-53 | 3 | 36,453 | A.J. Burnett | Jose Contreras | A.J. Burnett | Jose Contreras | | 581 | 548 | 33 |
| 2006-08-07 | vs BAL | 112 | W 8-1 | 59-53 | 3 | 23,838 | Brian Tallet | Russ Ortiz | Jeremy Accardo | Russ Ortiz | Brandon League | 589 | 549 | 40 |
| 2006-08-08 | vs BAL | 113 | L 4-8 | 59-54 | 3 | 28,823 | Shaun Marcum | Daniel Cabrera | Daniel Cabrera | Scott Schoeneweis | | 593 | 557 | 36 |
| 2006-08-09 | vs BAL | 114 | W 4-3 | 60-54 | 3 | 34,199 | Roy Halladay | Erik Bedard | Roy Halladay | Erik Bedard | B.J. Ryan | 597 | 560 | 37 |
| 2006-08-10 | @ MIN | 115 | W 5-0 | 61-54 | 3 | 30,118 | Ted Lilly | Carlos Silva | Ted Lilly | Carlos Silva | | 602 | 560 | 42 |
| 2006-08-11 | @ MIN | 116 | W 7-1 | 62-54 | 3 | 31,814 | A.J. Burnett | Matt Garza | A.J. Burnett | Matt Garza | | 609 | 561 | 48 |
| 2006-08-12 | @ MIN | 117 | W 4-0 | 63-54 | 3 | 36,261 | Scott Downs | Boof Bonser | Scott Downs | Boof Bonser | | 613 | 561 | 52 |
| 2006-08-13 | @ MIN | 118 | L 0-5 | 63-55 | 3 | 32,811 | Shaun Marcum | Brad Radke | Brad Radke | Shaun Marcum | | 613 | 566 | 47 |
| 2006-08-15 | @ TBA | 119 | W 4-3 | 64-55 | 3 | 9,217 | Roy Halladay | Jae Weong Seo | Roy Halladay | Brian Meadows | B.J. Ryan | 617 | 569 | 48 |
| 2006-08-16 | @ TBA | 120 | L 3-8 | 64-56 | 3 | 8,195 | Ted Lilly | James Shields | James Shields | Ted Lilly | | 620 | 577 | 43 |
| 2006-08-17 | @ TBA | 121 | W 6-2 | 65-56 | 3 | 8,697 | A.J. Burnett | Scott Kazmir | A.J. Burnett | Brian Meadows | | 626 | 579 | 47 |
| 2006-08-18 | @ BAL | 122 | L 2-7 | 65-57 | 3 | 22,679 | Scott Downs | Kris Benson | Kris Benson | Scott Downs | | 628 | 586 | 42 |
| 2006-08-19 | @ BAL | 123 | L 0-15 | 65-58 | 3 | 25,380 | Shaun Marcum | Daniel Cabrera | Daniel Cabrera | Shaun Marcum | | 628 | 601 | 27 |
| 2006-08-20 | @ BAL | 124 | W 9-2 | 66-58 | 3 | 23,639 | Roy Halladay | Erik Bedard | Roy Halladay | Erik Bedard | | 637 | 603 | 34 |
| 2006-08-21 | vs OAK | 125 | L 10-12 | 66-59 | 3 | 28,280 | Ted Lilly | Dan Haren | Dan Haren | Brandon League | Justin Duchscherer | 647 | 615 | 32 |
| 2006-08-22 | vs OAK | 126 | W 4-3 | 67-59 | 3 | 30,071 | A.J. Burnett | Brad Halsey | A.J. Burnett | Brad Halsey | B.J. Ryan | 651 | 618 | 33 |
| 2006-08-23 | vs OAK | 127 | L 0-6 | 67-60 | 3 | 32,516 | Gustavo Chacin | Esteban Loaiza | Esteban Loaiza | Gustavo Chacin | | 651 | 624 | 27 |
| 2006-08-25 | vs KCA | 128 | W 6-3 | 68-60 | 3 | 26,343 | Shaun Marcum | Luke Hudson | Shaun Marcum | Luke Hudson | B.J. Ryan | 657 | 627 | 30 |
| 2006-08-26 | vs KCA | 129 | L 0-2 | 68-61 | 3 | 38,070 | Roy Halladay | Runelvys Hernandez | Runelvys Hernandez | Roy Halladay | | 657 | 629 | 28 |
| 2006-08-27 | vs KCA | 130 | W 10-6 | 69-61 | 3 | 36,417 | Ted Lilly | Odalis Perez | Ted Lilly | Odalis Perez | | 667 | 635 | 32 |
| 2006-08-28 | @ CLE | 131 | L 4-6 | 69-62 | 3 | 19,623 | A.J. Burnett | Paul Byrd | Paul Byrd | A.J. Burnett | Tom Mastny | 671 | 641 | 30 |
| 2006-08-29 | @ CLE | 132 | L 2-5 | 69-63 | 3 | 21,563 | Gustavo Chacin | CC Sabathia | CC Sabathia | Brandon League | | 673 | 646 | 27 |
| 2006-08-30 | @ CLE | 133 | L 2-3 | 69-64 | 3 | 22,065 | Shaun Marcum | Jeremy Sowers | Rafael Betancourt | B.J. Ryan | | 675 | 649 | 26 |
| 2006-08-31 | @ BOS | 134 | L 4-6 | 69-65 | 3 | 36,238 | Roy Halladay | Julian Tavarez | Manny Delcarmen | Roy Halladay | Jonathan Papelbon | 679 | 655 | 24 |
| 2006-09-01 | @ BOS | 135 | L 1-2 | 69-66 | 3 | 36,235 | Ted Lilly | Kyle Snyder | Kyle Snyder | Ted Lilly | Mike Timlin | 680 | 657 | 23 |
| 2006-09-02 | @ BOS | 136 | W 5-1 | 70-66 | 3 | 35,973 | A.J. Burnett | Kevin Jarvis | A.J. Burnett | Kevin Jarvis | | 685 | 658 | 27 |
| 2006-09-03 | @ BOS | 137 | W 6-1 | 71-66 | 3 | 35,719 | Gustavo Chacin | Josh Beckett | Gustavo Chacin | Josh Beckett | | 691 | 659 | 32 |
| 2006-09-04 | vs CLE | 138 | W 4-3 | 72-66 | 3 | 27,864 | Shaun Marcum | CC Sabathia | Brandon League | CC Sabathia | B.J. Ryan | 695 | 662 | 33 |
| 2006-09-05 | vs CLE | 139 | L 2-7 | 72-67 | 3 | 18,517 | Roy Halladay | Jeremy Sowers | Jeremy Sowers | Jeremy Accardo | | 697 | 669 | 28 |
| 2006-09-06 | vs CLE | 140 | W 3-2 | 73-67 | 3 | 20,406 | Ted Lilly | Jake Westbrook | Ted Lilly | Jake Westbrook | B.J. Ryan | 700 | 671 | 29 |
| 2006-09-08 | @ ANA | 141 | L 1-4 | 73-68 | 3 | 42,259 | A.J. Burnett | Joe Saunders | Joe Saunders | A.J. Burnett | Francisco Rodriguez | 701 | 675 | 26 |
| 2006-09-09 | @ ANA | 142 | W 2-1 | 74-68 | 3 | 44,007 | Gustavo Chacin | Kelvim Escobar | Gustavo Chacin | Kelvim Escobar | B.J. Ryan | 703 | 676 | 27 |
| 2006-09-10 | @ ANA | 143 | L 3-4 | 74-69 | 3 | 40,506 | Roy Halladay | Jered Weaver | Jered Weaver | Josh Towers | Francisco Rodriguez | 706 | 680 | 26 |
| 2006-09-11 | @ SEA | 144 | W 6-2 | 75-69 | 3 | 24,462 | Ted Lilly | Jake Woods | Ted Lilly | Jake Woods | | 712 | 682 | 30 |
| 2006-09-12 | @ SEA | 145 | L 2-4 | 75-70 | 3 | 26,144 | Shaun Marcum | Gil Meche | Gil Meche | Shaun Marcum | J.J. Putz | 714 | 686 | 28 |
| 2006-09-13 | @ SEA | 146 | W 10-0 | 76-70 | 3 | 26,225 | A.J. Burnett | Cha-Seung Baek | A.J. Burnett | Cha-Seung Baek | | 724 | 686 | 38 |
| 2006-09-15 | vs TBA | 147 | W 5-4 | 77-70 | 3 | 27,607 | Roy Halladay | Jae Weong Seo | B.J. Ryan | Brian Meadows | | 729 | 690 | 39 |
| 2006-09-16 | vs TBA | 148 | W 6-1 | 78-70 | 3 | 30,698 | Ted Lilly | J.P. Howell | Ted Lilly | J.P. Howell | | 735 | 691 | 44 |
| 2006-09-17 | vs TBA | 149 | W 5-3 | 79-70 | 3 | 32,959 | Gustavo Chacin | Brian Stokes | Justin Speier | Shawn Camp | B.J. Ryan | 740 | 694 | 46 |
| 2006-09-18 | vs NYA | 150 | L 6-7 | 79-71 | 3 | 32,846 | A.J. Burnett | Darrell Rasner | Darrell Rasner | A.J. Burnett | Jose Veras | 746 | 701 | 45 |
| 2006-09-19 | vs NYA | 151 | L 3-6 | 79-72 | 3 | 30,793 | Shaun Marcum | Jeff Karstens | Jeff Karstens | Jason Frasor | Kyle Farnsworth | 749 | 707 | 42 |
| 2006-09-20 | vs NYA | 152 | W 3-2 | 80-72 | 3 | 33,029 | Roy Halladay | Sean Henn | Davis Romero | Sean Henn | B.J. Ryan | 752 | 709 | 43 |
| 2006-09-22 | vs BOS | 153 | L 1-7 | 80-73 | 3 | 33,874 | Ted Lilly | Julian Tavarez | Julian Tavarez | Ted Lilly | | 753 | 716 | 37 |
| 2006-09-23 | vs BOS | 154 | W 5-3 | 81-73 | 3 | 42,267 | A.J. Burnett | Devern Hansack | A.J. Burnett | Devern Hansack | B.J. Ryan | 758 | 719 | 39 |
| 2006-09-24 | vs BOS | 155 | W 13-4 | 82-73 | 3 | 44,212 | Gustavo Chacin | Kyle Snyder | Gustavo Chacin | Kyle Snyder | | 771 | 723 | 48 |
| 2006-09-25 | vs BOS | 156 | W 5-0 | 83-73 | 2 | 40,123 | Shaun Marcum | Tim Wakefield | Shaun Marcum | Tim Wakefield | | 776 | 723 | 53 |
| 2006-09-26 | @ DET | 157 | L 3-4 | 83-74 | 3 | 27,908 | Dustin McGowan | Jeremy Bonderman | Jeremy Bonderman | Dustin McGowan | Todd Jones | 779 | 727 | 52 |
| 2006-09-27 | @ DET | 158 | W 7-4 | 84-74 | 2 | 26,430 | Ted Lilly | Nate Robertson | Ted Lilly | Nate Robertson | B.J. Ryan | 786 | 731 | 55 |
| 2006-09-28 | @ DET | 159 | W 8-6 | 85-74 | 2 | 28,670 | A.J. Burnett | Kenny Rogers | A.J. Burnett | Kenny Rogers | B.J. Ryan | 794 | 737 | 57 |
| 2006-09-29 | @ NYA | 160 | L 2-7 | 85-75 | 3 | 52,331 | Gustavo Chacin | Mike Mussina | Mike Mussina | Gustavo Chacin | | 796 | 744 | 52 |
| 2006-09-30 | @ NYA | 161 | W 6-5 | 86-75 | 2 | 54,576 | Shaun Marcum | Jeff Karstens | Jason Frasor | Mike Myers | B.J. Ryan | 802 | 749 | 53 |
| 2006-10-01 | @ NYA | 162 | W 7-5 | 87-75 | 2 | 54,886 | Dustin McGowan | Jaret Wright | Josh Towers | Kyle Farnsworth | Scott Downs | 809 | 754 | 55 |