| # | Title | Artist | Length |
|---|
| 1 | Opening Movie: Setting out on a Journey in the Hoenn Region | Shota Kageyama | 0:46 |
| 2 | Opening Movie 2 | Shota Kageyama | 0:19 |
| 3 | Title Screen: Main Theme | Shota Kageyama | 1:44 |
| 4 | Introductions | Shota Kageyama | 1:47 |
| 5 | Littleroot Town | Shota Kageyama | 1:59 |
| 6 | Birch Pokémon Lab | Minako Adachi | 1:13 |
| 7 | May | Hideaki Kuroda | 1:13 |
| 8 | H-Help Me! | Minako Adachi | 0:20 |
| 9 | Battle! (Wild Pokémon) | Shota Kageyama | 1:40 |
| 10 | Victory! (Wild Pokémon) | Shota Kageyama | 0:36 |
| 11 | Route 101 | Shota Kageyama | 1:19 |
| 12 | Oldale Town | Shota Kageyama | 1:27 |
| 13 | Obtained an Item! | Shota Kageyama | 0:05 |
| 14 | Hurry Along | Minako Adachi | 0:55 |
| 15 | Pokémon Center | Minako Adachi | 1:26 |
| 16 | Pokémon Healed | Shota Kageyama | 0:05 |
| 17 | Trainers' eyes Meet (Youngster) | Minako Adachi | 0:36 |
| 18 | Pokédex Evaluation... Getting Started! | Shota Kageyama | 0:05 |
| 19 | Trainers' eyes Meet (Lass) | Minako Adachi | 0:29 |
| 20 | Battle! (Trainer Battle) | Shota Kageyama | 2:56 |
| 21 | Victory! (Trainer Battle) | Shota Kageyama | 0:37 |
| 22 | Level Up! | Shota Kageyama | 0:04 |
| 23 | Petalburg City | Minako Adachi | 1:13 |
| 24 | Pokédex Evaluation... You're on Your Way! | Shota Kageyama | 0:05 |
| 25 | Wally's Theme | Minako Adachi | 1:23 |
| 26 | Route 104 | Minako Adachi | 1:29 |
| 27 | Petalburg Woods | Minako Adachi | 1:27 |
| 28 | Team Magma Appears! | Hideaki Kuroda | 0:49 |
| 29 | Battle! (Team Aqua / Team Magma) | Shota Kageyama | 3:21 |
| 30 | Victory! (Team Aqua / Team Magma) | Minako Adachi | 0:23 |
| 31 | Rustboro City | Shota Kageyama | 2:12 |
| 32 | Trainers' School | Shota Kageyama | 1:25 |
| 33 | Obtained a Key Item! | Shota Kageyama | 0:05 |
| 34 | Crossing the Sea | Shota Kageyama | 1:05 |
| 35 | Dewford Town | Shota Kageyama | 2:24 |
| 36 | Trainers' eyes Meet (Tuber♀) | Minako Adachi | 0:34 |
| 37 | Pokédex Evaluation... Keep at It! | Shota Kageyama | 0:06 |
| 38 | Slateport City | Shota Kageyama | 2:54 |
| 39 | Oceanic Museum | Minako Adachi | 2:31 |
| 40 | Leader's Theme (Team Aqua / Team Magma) | Shota Kageyama | 1:11 |
| 41 | Route 110 | Shota Kageyama | 1:23 |
| 42 | Cycling | Minako Adachi | 1:49 |
| 43 | Trainers' eyes Meet (Triathlete) | Shota Kageyama | 0:27 |
| 44 | Verdanturf Town | Shota Kageyama | 1:41 |
| 45 | Received a Pokémon Egg! | Shota Kageyama | 0:05 |
| 46 | Route 113 | Minako Adachi | 2:25 |
| 47 | Trainers' eyes Meet (Twins) | Minako Adachi | 0:23 |
| 48 | Fallarbor Town | Minako Adachi | 1:58 |
| 49 | Cable Car | Minako Adachi | 0:13 |
