| EPISODE TITLE | EPISODE NUMBER |
| "Little Green Men" | 2x01 |
| "The Host" | 2x02 |
| "Blood" | 2x03 |
| "Sleepless" | 2x04 |
| "Duane Barry" 1 of 3 | 2x05 |
| "Ascension" 2 of 3 | 2x06 |
| "3" | 2x07 |
| "One Breath" | 2x08 |
| "Firewalker" | 2x09 |
| "Red Museum" | 2x10 |
| "Excelsius Dei" | 2x11 |
| "Aubrey" | 2x12 |
| "Irresistable" | 2x13 |
| "Die Hand Die Verletzt" | 2x14 |
| "Fresh Bones" | 2x15 |
| "Colony" 1 of 2 | 2x16 |
| "End Game" 2 of 2 | 2x17 |
| "Fearful Symmetry" | 2x18 |
| "Dod Kalm" | 2x19 |
| "Humbug" | 2x20 |
| "The Calusari" | 2x21 |
| "F. Emasculata" | 2x22 |
| "Soft Light" | 2x23 |
| "Our Town" | 2x24 |
| "Anasazi" 1 of 3 | 2x25 |