| 1 | Banner Intro |
| 2 | Main Theme |
| 3 | Chapter 1: Meeting Detective Pikachu 01 |
| 4 | Chapter 1: Meeting Detective Pikachu 02 |
| 5 | Vicinity of Tahnti Station 01 |
| 6 | Vicinity of Tahnti Station 02 |
| 7 | Chapter 1: Track Down the Aipom |
| 8 | Talking to Detective Pikachu 01 |
| 9 | Talking to Detective Pikachu 02 |
| 10 | Talking to Detective Pikachu 03 |
| 11 | Chapter 1: Smells Like a Case! |
| 12 | Tahnti Park |
| 13 | Chapter 1: Murkrow’s Nest 01 |
| 14 | Chapter 1: Murkrow’s Nest 02 |
| 15 | Chapter 1: Murkrow Interrogation |
| 16 | Chapter 1: Burmy Interrogation |
| 17 | Chapter 1: Wormadam Interrogation |
| 18 | Chapter 1: Refutation |
| 19 | Chapter 1: Case Solved |
| 20 | Chapter 1: Baker Detective Agency (Cutscene) |
| 21 | Baker Detective Agency |
| 22 | Chapter 2: The Beginning |
| 23 | Goodman’s Apartment |
| 24 | Chapter 2: Finding Notes |
| 25 | Chapter 2: Defeat the Glalie! |
| 26 | Litwick Cave |
| 27 | Chapter 2: Flying on Drifblim |
| 28 | Chapter 2: Hi-Hat Café (Cutscene) |
| 29 | Hi-Hat Café |
| 30 | Chapter 2: Broken Vial |
| 31 | Chapter 3: Café Talk |
| 32 | Chapter 3: Pikcahu |
| 33 | PCL |
| 34 | Chapter 3: Dorothy Fridge |
| 35 | Inside PCL |
| 36 | Chapter 3: Fridge’s Lab |
| 37 | Chapter 3: Courtyard |
| 38 | Chapter 3: Carlos’ Lab |
| 39 | Chapter 3: Wallace’s Lab |
| 40 | Chapter 3: This Is It |
| 41 | Chapter 3: Trevenant Attack! |
| 42 | Chapter 3: Trevenant Incident |
| 43 | Chapter 3: Help Pikachu! |
| 44 | Chapter 3: Catch the Gengar! |
| 45 | Chapter 3: Secret Passageway |
| 46 | Chapter 3: Underground Laboratory (Cutscene) |
| 47 | Underground Laboratory |
| 48 | A Bolt of Brilliance! |
| 49 | Chapter 3: Refutation 01 |
| 50 | Chapter 3: Refutation 02 |
| 51 | Chapter 3: Refutation 03 |
| 52 | Chapter 3: Refutation 04 |
| 53 | Chapter 3: Carlos Capture |
| 54 | Chapter 3: Baker Detective Agency (Cutscene) |
| 55 | Chapter 4: Opening |
| 56 | Chapter 4: Baker Detective Agency (Cutscene) |
| 57 | Chapter 4: Amanda |
| 58 | Chapter 4: Happy Ludicolo |
| 59 | Chapter 4: Heading to Cappucci Island |
| 60 | Chapter 4: Louise Milligan |
| 61 | Chapter 4: Cappucci Island 01 |
| 62 | Chapter 4: Manectric |
| 63 | Chapter 4: Waal’s Home (Cutscene) |
| 64 | Chapter 4: Cappucci Island 02 |
| 65 | Chapter 4: Secret Path |
| 66 | Chapter 4: Watch Out For Stunfisk’s Electric Shocks! |
| 67 | Chapter 4: Masquerain’s Fog |
| 68 | Chapter 4: Bridge Repair |
| 69 | Chapter 4: Feebas Evolved Into Milotic |
| 70 | Chapter 4: Refutation 01 |
| 71 | Chapter 4: Refutation 02 |
| 72 | Chapter 4: Refutation 03 |
| 73 | Chapter 4: Refutation 04 |
| 74 | Chapter 4: Confession |
| 75 | Chapter 5: Roger Clifford |
| 76 | Chapter 5: Hi-Hat Café (Cutscene) |
| 77 | Chapter 5: Alakazam’s Call |
| 78 | Chapter 5: Fine Park |
| 79 | Chapter 5: Rescue Bunaeary! |
| 80 | Chapter 6: GNN 01 |
| 81 | Chapter 6: President of GNN |
| 82 | Chapter 6: GNN 02 |
| 83 | Chapter 6: Olga Ellison |
| 84 | Chapter 6: Max and Chatot |
| 85 | Chapter 6: Hiro Morgan |
| 86 | Chapter 6: Yanma Cameras 01 |
| 87 | Chapter 6: Yanma Cameras 02 |
| 88 | Chapter 6: Carina Mitchell |
| 89 | Chapter 6: Purugly |
| 90 | Chapter 6: GNN 03 |
| 91 | Chapter 6: Shooting |
| 92 | Chapter 6: Kricketune and Carina Performance |
| 93 | Chapter 6: Incident |
| 94 | Chapter 6: Refutation 01 |
| 95 | Chapter 6: Refutation 02 |
| 96 | Chapter 6: GNN 04 |
| 97 | Chapter 6: Stop Keith! |
| 98 | Chapter 7: Accelgor Help |
| 99 | Chapter 7: Ryme Wharf |
| 100 | Chapter 7: Thought |
| 101 | Chapter 7: Infiltrate the Warehouse! |
| 102 | Chapter 7: Alexander Wilde |
| 103 | Chapter 7: Ryme Wharf Warehouse |
| 104 | Chapter 7: Pansage |
| 105 | Chapter 7: Simon Yen |
| 106 | Chapter 7: Escape from the Factory Manager! |
| 107 | Chapter 7: Leaving the Warehouse |
| 108 | Chapter 8: S.S. Prime Treasure Storage |
| 109 | Chapter 8: S.S. Prime Treasure Deck (Cutscene) |
| 110 | Chapter 8: S.S. Prime Treasure Deck |
| 111 | Chapter 8: S.S. Prime Treasure Interior 01 |
| 112 | Chapter 8: S.S. Prime Treasure Interior 02 |
| 113 | Chapter 8: Krokorok |
| 114 | Chapter 8: Emilia Can Help |
| 115 | Chapter 8: Gino Farina |
| 116 | Chapter 8: Rose and Snubbull |
| 117 | Chapter 8: The Mask Disappears |
| 118 | Chapter 8: Refutation 01 |
| 119 | Chapter 8: Refutation 02 |
| 120 | Chapter 8: Refutation 03 |
| 121 | Chapter 8: Dressed for the Auction |
| 122 | Chapter 8: Auction Reception |
| 123 | Chapter 8: Auction Hall |
| 124 | Chapter 8: Let the Bidding Begin! |
| 125 | Chapter 8: Chemical R |
| 126 | Chapter 8: Skorupi Attacks |
| 127 | Chapter 8: Capture Keith! |
| 128 | Chapter 8: Case Solved |
| 129 | Chapter 8: Pikachu’s Promise |
| 130 | Chapter 8: Crisis |
| 131 | Chapter 9: Pokémon Carnival |
| 132 | Chapter 9: Information |
| 133 | Chapter 9: Baker Detective Agency |
| 134 | Chapter 9: Heading to Central Square |
| 135 | Chapter 9: Disarm the R Machine! 01 |
| 136 | Chapter 9: Disarm the R Machine! 02 |
| 137 | Chapter 9: We Did It! |
| 138 | Chapter 9: Roger 01 |
| 139 | Chapter 9: Roger 02 |
| 140 | Chapter 9: Stop Roger |
| 141 | Chapter 9: Talking to Mewtwo |
| 142 | Chapter 9: The End |
| 143 | Staff Roll |
| 144 | Point of View |
| 145 | Pikachu Sign 01 |
| 146 | Pikachu Sign 02 |
| 147 | Pikachu Sign 03 |
