| Tokyo | - | - |
| Nakano | Tokyo | Chapter 2 |
| Broadway 1F | Nakano | Chapter 2 |
| Kuremi Detective Agency | Broadway 1F | Chapter 2 |
| Broadway 2F | Nakano | Chapter 2 |
| Broadway 3F | Nakano | Chapter 2 |
| Broadway 4F | Nakano | Chapter 2 |
| K-Cafe | Broadway 4F | Chapter 2 |
| Offline Colosseum | Broadway 4F | Chapter 2 |
| Central Hospital | Tokyo | Chapter 2 |
| Central Hospital Lobby | Central Hospital | Chapter 2 |
| Central Hospital General Ward | Central Hospital | Chapter 2 |
| Central Hospital Special Ward | Central Hospital | Chapter 2 |
| Shinjuku | Tokyo | Chapter 4 |
| Shinjuku Station Square | Shinjuku | Chapter 4 |
| Shinjuku Downtown | Shinjuku | Chapter 4 |
| Shinjuku: Digital Shift | Shinjuku Downtown | Chapter 12 |
| Shibuja | Tokyo | Chapter 5 |
| Shibuya Scramble Intersection | Shibuja | Chapter 5 |
| Shibuya Tower Records Entrance | Shibuja | Chapter 5 |
| Shibuya Tower Records | Shibuya Tower Records Entrance | Chapter 5 |
| Shibuya: Digital Shift | Shibuja | Chapter 13 |
| Akihabara | Tokyo | Chapter 10 |
| Akihabara Electric Town Boulevard | Akihabara | Chapter 10 |
| Asakusa | Tokyo | Chapter 10 |
| Asakusa Gate | Asakusa | Chapter 10 |
| Asakusa: Digital Shift | Asakusa Gate | Chapter 12 |
| Ueno | Tokyo | Chapter 12 |
| Ueno Museum Park | Ueno | Chapter 12 |
| Ueno Museum Entrance | Ueno | Chapter 12 |
| Ueno: Digital Shift | Ueno Museum Entrance | Chapter 12 |
| Odaiba | Tokyo | Chapter 17 |
| Odaiba Bay | Odaiba | Chapter 17 |
| Odaiba Helipad | Odaiba | Chapter 17 |
| Toyosu Condos | Tokyo | Chapter 5 |
| Nakano Underpass | Nakano Underpass Entrance | Chapter 16 |
| Nakano Underpass Entrance | Tokyo | Chapter 16 |
| Roppongi Underground Lab | Nakano Underpass | Chapter 16 |
| Tokyo Metropolitan Office | Tokyo | Chapter 11 |
| Tokyo Metropolitan Office - Lobby | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - 13F | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - 14F | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - 15F | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F27 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F28 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F29 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F30 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F36 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F37 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F38 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F39 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F40 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F48 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - F49 | Tokyo Metropolitan Office | Chapter 11 |
| Tokyo Metropolitan Office - Roof | Tokyo Metropolitan Office | Chapter 11 |
| Ikebukuro | Tokyo | Chapter 2 |
| Ikebukuro: Main Street Intersection | Ikebukuro | Chapter 2 |
| Ikebukuro: Main Street | Ikebukuro | Chapter 2 |
| Internet Cafe: Hudie | Ikebukuro: Main Street | Chapter 2 |
| Ikebukuru Aquarium | Ikebukuro: Main Street | Chapter 2 |
| DigiLab | - | - |
| Digital Space 01 | DigiLab | Chapter 4 |
| Digital Space 02 | DigiLab | Chapter 10 |
| Digital Space 03 | DigiLab | Chapter 14 |
| Digital Space 04 | DigiLab | Chapter 11 |
| Digital Space 05 | DigiLab | Chapter 8 |
| Digital Space 06 | DigiLab | Chapter 17 |
| Digital Space 07 | DigiLab | Chapter 16 |
| Digital Space 08 | DigiLab | Chapter 16 |
| Digital Space 09 | DigiLab | Chapter 11 |
| Digital Space 10 | DigiLab | Chapter 16 |
| Digital Space 11 | DigiLab | Chapter 13 |
| Digital Space 12 | DigiLab | Chapter 15 |
| Digital Network | DigiLab | Chapter 14 |
| K's Server | DigiLab | Chapter 15 |
| Akihabara: Digital Shift | DigiLab | Chapter 16 |
| Digital Network I | DigiLab | - |
| Digital Network II | DigiLab | - |
| Digital Network III | DigiLab | - |
| Digital Network IV | DigiLab | - |
| Digital Network V | DigiLab | - |
| Digital Network VI | DigiLab | - |
| Digital Network VII | Ueno: Digital Shift | - |
| Digital Network VIII | Ueno: Digital Shift | - |
| Digital Network IX | DigiLab | - |
| Digital Network X | DigiLab | - |
| Digital Line | DigiLab | - |
| Avalon Server | DigiLab | - |
| Makato Yamashina's Memory | DigiLab | - |
| Beginning in EDEN | DigiLab | - |
| EDEN | - | - |
| EDEN Entrance | EDEN | Chapter 2 |
| EDEN Community Area | EDEN | Chapter 2 |
| EDEN Free Area | EDEN | Chapter 2 |
| EDEN Open Space | EDEN | Chapter 4 |
| Comimani Forum | EDEN | Chapter 6 |
| Kamishiro Enterprises | EDEN | Chapter 5 |
| Kowloon Lv. 1 | EDEN | Chapter 2 |
| Kowloon Lv. 2 | EDEN | Chapter 3 |
| Kowloon Lv. 3 | EDEN | Chapter 4 |
| Kowloon Lv. 4 | EDEN | Chapter 8 |
| Kowloon Lv. 5 | EDEN | Chapter 8 |
| Zaxon Forum | EDEN | Chapter 4 |
| Demons' Den | EDEN | Chapter 4 |
| Valhalla Server | EDEN | Chapter 10 |
| Memory Server | EDEN | Chapter 16 |
| Financial Institution Server | EDEN | Chapter 3 |
| Cyber Crimes Investigation Unit Server | EDEN | Chapter 8 |
| Power Plant Server | EDEN | Chapter 12 |
| Under Kowloon Lv. 1 | EDEN | Chapter 3 |
| Under Kowloon Lv. 2 | EDEN | Chapter 3 |
| Under Kowloon Lv. 3 | EDEN | Chapter 6 |
| Under Kowloon Lv. 4 | EDEN | Chapter 10 |
| Under Kowloon Lv. 5 | EDEN | Chapter 17 |
| Hacker Forum | EDEN | Chapter 3 |
| Abyss Server | EDEN | Post-Game |
| Hosaka's Server | EDEN | Chapter 9 |