The following is a list of the trophies from the Metroid series that appear in the 3DS. There are 13 trophies in total.
| Name | How to Unlock | Picture | Description |
| Samus Aran | Classic Mode | [[]] | TBA |
| Samus | All-Star | [[]] | TBA |
| Zero Suit Samus | Classic Mode | [[]] | TBA |
| Zero Suit Samus | All-Star | [[]] | TBA |
| Screw Attack | TBA | [[]] | TBA |
| Metroid | TBA | File:MetroidTrophy3DS.jpg | TBA |
| Mother Brain | TBA | File:MotherBrainTrophy3DS.jpg | TBA |
| Dark Samus | TBA | File:DarkSamusTrophy3DS.jpg | TBA |
| Zoomer | TBA | [[]] | TBA |
| Kihunter | TBA | File:KihunterTrophy3DS.jpg | TBA |
| King Kihunter | TBA | [[]] | TBA |
| Varia Suit | TBA | [[]] | TBA |
| Gravity Suit | TBA | [[]] | TBA |
