| 1. Logo/Main Title | not rated | 2:55 |
| 2. Starfleet Command/On Vulcan/Spock/Ten Seconds of Tension | not rated | 1:41 |
| 3. The Probe | not rated | 1:18 |
| 4. The Probe - Transition/The Take-Off/Menace of the Probe/Clouds and Water/Crew Stunned | not rated | 3:12 |
| 5. Time Travel | not rated | 1:33 |
| 6. The Yellowjackets - Market Street | not rated | 4:42 |
| 7. In San Francisco | not rated | 2:04 |
| 8. Chekov's Run | not rated | 1:24 |
| 9. Gillian Seeks Kirk | not rated | 2:46 |
| 10. Hospital Chase | not rated | 1:18 |
| 11. The Whaler | not rated | 2:03 |
| 12. Crash/Whale Fugue | not rated | 8:41 |
| 13. Kirk Freed | not rated | 0:45 |
| 14. Home Again/End Credits | not rated | 5:43 |
| 15. The Yellowjackets - Ballad of the Whale | not rated | 5:04 |
| 16. Main Title (alternate) | not rated | 2:58 |
| 17. Time Travel (alternate) | not rated | 1:31 |
| 18. Chekov's Run (album ending) | not rated | 1:21 |
| 19. The Whaler (alternate) | not rated | 2:07 |
| 20. Crash/Whale Fugue (album track) | not rated | 8:17 |
| 21. Home Again and End Credits (alternate) | not rated | 5:20 |
| 22. Main Title (album track) | not rated | 2:42 |
| 23. Whale Fugue (alternate) | not rated | 1:10 |
| 24. Edge of Etiquette - I Hate You | not rated | 1:59 |
| 1:12:34 |
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