- Space Pirate Frigate, Orpheon
Orbiting the planet Tallon IV, this is where Samus begins the game. The frigate's name is Orpheon. Later this crashes into Tallon IV and Samus then explores in it after acquiring the Gravity Suit.
- Tallon Overworld
A rainforest-like area, this is where Samus initially makes planetfall and is where Samus's Gunship stays for the duration of the game. Tallon Overworld also encompasses the sunken Orpheon.
- Chozo Ruins
This ancient structure was once a center of the thriving Chozo civilization on Tallon IV that was brought to an end by the meteor that hit many years ago.
- Magmoor Caverns
A kind of subway system for the game – its magma-filled tunnels connect all the areas together with the exception of the Impact Crater. The Space Pirates use the caverns as a source of Geothermal Power|geothermal power.
- Phendrana Drifts
This cold, mountainous location consists of three main parts: an ancient Chozo ruin, some Space Pirate research labs (since the subzero temperatures make specimen containment easier), and the ice caves and valleys at the edge aptly called Phendrana's Edge. It is home to many creatures of electrical origins (Pulse Bombu, Scatter Bombu) and ice based creatures (Sheegoth, Ice Shriekbats).
- Phazon Mines
The Phazon Mines are the center of the Space Pirates' Tallon IV operations. The scenery here alternates between the Space Pirates' mining and research facilities and dark caves illuminated only by the glowing Phazon. Also home to the different beam troopers and omega pirate, elite pirate and phazon elite as well.
- Impact Crater
This is the final area of the game. This location is completely corrupted by Phazon radiation. Samus finds Fission Metroids, and Phazon strong enough to damage her even through the Phazon Suit.