After important events unfold in Elun, you return to Ghavoran to destroy the blue E.M.M.I., also known as E.M.M.I.-05IM.
Reach the E.M.M.I. Zone
Go to the left. If you want to get the hidden Missile Tank in the next room, stand as far away as possible while using the Grapple Beam on the door to the left of the shuttle, then Speed Boost through it, then jump as soon as you enter the next room, and keep jumping when you reach the end of each platform that you land on, and you will Speed Boost through the blocks in the upper left of the left wall and get the Missile Tank hidden in the wall there.
The organic creatures that you have encountered previously may become infected with X parasites and behave differently.
From the room with the flying creature that creates a toxic area beneath it, go through the door on the left. Go to the upper area of this room, and go through the door on the left. You will get a briefing, and can save the game.
After the briefing, go through the door on the left. The large red creature will be infected with an X parasite and become larger. If you get close to it, you can perform a Melee Counter when it flashes, then shoot it to kill it. Afterward, go through the E.M.M.I. Zone Door.
Ghavoran E.M.M.I. Zone, Part 1
Remember that the E.M.M.I. is active again, so be careful to avoid it.
Go the left, and when you reach the end, go upward and to the right.
The E.M.M.I. will be patrolling the area above you, and it may come down the blue walls, so you may want to use Phantom Cloak here. This E.M.M.I. can freeze you. When the E.M.M.I. has gone far enough away, use the Grapple Beam on the blue wall on the upper right, and climb up. Keep an eye on the E.M.M.I.'s location, use Phantom Cloak if necessary, then shoot open the door on the right and go through.
Get in the water on the right, and keep going to the right until you can jump up to the E.M.M.I. Zone Door there. Go through.
Get the Map of Ghavoran
Go to the right and use the Grapple Beam on the blue wall on the right. Roll into the tunnel on the left and use a bomb slightly left of the middle to break open a block above you, then jump up through where the block was. Roll through the rest of the tunnel, then go to the door on the right and go through. Step on the glowing panel to get the map of Ghavoran and optionally save the game.
Leave the save room and roll into the small tunnel on the left and use a bomb to break open a path to the E.M.M.I. Zone Door on the left. Go through.
Ghavoran E.M.M.I. Zone, Part 2
Jump and grab the blue ceiling, then activate Phantom Cloak and go to the left until you reach the ledge on the left. If the E.M.M.I. is right below you, wait for it to go past, then keep going left to reach the next room.
Jump onto the platform on the left and aim up and left with the Grapple Beam to pull yourself up to the top of the left wall. Deactivate Phantom Cloak if it is active, then jump to the right to land on the ledge there, then use the Grapple Beam on the blue wall above you to the left and climb up to reach the exit from the E.M.M.I. Zone. Go through.
Go to the left and shoot some charged shots upward to get rid of the swarm of flying creatures, then jump up to grab the ledge above the water. Go upward from there and go through the E.M.M.I. Zone Door.
The E.M.M.I. will be patrolling the rooms to the right and below you. It can open the upper right door, but not the lower right door (a Grapple Beam Door). Activate Phantom Cloak and drop down next to the Grapple Beam Door. The E.M.M.I. can't hear you open the Grapple Beam Door, so deactivate Phantom Cloak and wait for the E.M.M.I. to come through the upper right door. Then quickly use the Grapple Beam to pull open the door and go through. Jump over the gap to the right, get onto the ledge above the water, then jump and use two or three Flash Shifts in quick succession to reach the charge beam door on the right side of the room. Shoot a charged shot at it, activate Phantom Cloak as soon as possible, and go through the door, then use the Grapple Beam on the blue wall on the right to reach the ledge there, and go through the E.M.M.I. Zone Door.
Go Through the Area
Go to the right and you will slide down a short slope. Make your way downward through this room. Go through the door on the right side of the room to reach a save room.
From the save room, go through the door on the right. When the creature rises up on its hind legs, slide under it. (Or if you want to kill it, shoot at its underside, but be prepared to jump as soon as it hits the ground, to avoid the wave of electricity that goes out in front of its legs.)
After you slide under it (or kill it), go through the door on the right.
The ledge above you is made of Pitfall Blocks, so go to the right side of the room and use the Grapple Beam to reach the blue wall at the upper right. From there, roll through the tunnel on the left, use the Total Recharge Station if you wish, then go upward to reach the door. Shoot it with a missile, then open it and go through.
Roll through the tunnel and use bombs when your path is blocked. At the end, you can optionally wall jump upward to reach the Energy Recharge Station above the tunnel that you came through. Otherwise, go to the left of the room and drop down into the water. Go to the right until you reach an underwater tunnel. Roll through it, then climb up to the Morph Ball Launcher, roll into it and use a bomb to activate it.
At the other end, shoot the item sphere in the statue's hands, then jump onto the item to get Spin Boost. This allows you to do a second jump in mid-air by pressing B at the right time. If you use it underwater, you can't go higher than your first jump.
Do a Spin Boost to reach the Morph Ball Launcher at the upper right. Roll into it and use a bomb to activate it. Go to the left to land in the water, then roll to the left through the underwater tunnel there.
Do a Spin Boost to reach the ledge on the left. You can't jump high enough to reach the ledge on the right, so instead, go up and climb up the blue wall, and roll into the tunnel on the right. Use bombs to go to the right through the tunnel. At the end of the tunnel, go through the door.
Go down to the Total Recharge Station and slide through the tunnel to the right of it. Drop down to the bottom of the room, then use Spin Boosts to jump up to the ledge to the left of the pink plant. Kill the wall creature, then climb up onto the pink plant above you. Go through the door on the left. Go down the slope in the next room and a boss battle will begin.
Defeat the Chozo Soldier the same way as you did the previous one.
Reach the E.M.M.I. Zone Again
Go through the door on the left and save the game if you wish. Then go through the door on the left.
Use Spin Boosts to go upward through this room until you are on the platform above the two red plant-like barriers. Use a Spin Boost to jump to the left and reach the ledge above the slope on the left. From there, go through the E.M.M.I. Zone Door.
Ghavoran E.M.M.I. Zone, Part 3
Keep an eye on the E.M.M.I.'s location and use Phantom Cloak as needed. Go through the door on the left and use the Grapple Beam on the ceiling, or perform several Flash Shifts in quick succession to the left. Go through whichever of the two doors on the left is easiest to get through safely, then leave the E.M.M.I. Zone through the door on the left.
Reach the Next E.M.M.I. Zone Door
Shoot charged shots at the flying creatures below, then go down into the water. If you jump to the left from the underwater ledge and perform a Spin Boost, you will be able to reach the ledge on the left, so do that. Then Spin Boost your way upward through this area to reach the E.M.M.I. Zone Door at the top. Go through.
Ghavoran Central Unit
Slide into the tunnel on the right, then slide through the next tunnel, then the next. The door to the Central Unit's door will be on the left. Go through.
This Central Unit's room has two ring turrets and two laser turrets.
After you kill the Central Unit, hold L and Y to destroy the heat shield on the door, then hold L and R to charge up the Omega Cannon, then press Y to shoot it at the door and open it.
E.M.M.I.-05IM (Blue E.M.M.I.)
In the next room, the E.M.M.I. will come down from above, so go to the right and slide through the tunnel. Then, making sure that the E.M.M.I. is following you and not changing direction, go to the far right side of the room, go through the door, and do a Spin Boost to reach the door above that. Then jump to grab the blue ceiling, and when it reaches the left side, drop down to the ledge below it. Turn around and the E.M.M.I. will climb along the ceiling toward you. Use this time to hold L and Y to destroy the E.M.M.I.'s heat shield. Run away if you run out of time, and try to reach the blue ceiling at the upper right to try again.
After you destroy the heat shield, the E.M.M.I. won't climb on the ceiling anymore. Slide to the right so you fall down below. Do NOT use the Grapple Beam on the blue ceiling, because it will take you right back to the E.M.M.I. Instead, go to the far right corner of the room and hold L and R to start charging up the Omega Cannon, then when the E.M.M.I. is in a good position for you to shoot at its head, aim and press Y to shoot its head.
You will get Ice Missiles. These replace your missiles. They can freeze the things you shoot at.
Get an Energy Tank
Go through the door on the right, then slide through the tunnel on the right. Go through the E.M.M.I. door there. You can use the Ammo Recharge Station if you wish, then shoot ice missiles at the creature above the Ammo Recharge Station to freeze it, shoot the regular beam to kill it, then shoot an Ice Missile at the plant barrier on the right to get an Energy Tank.
Get an Energy Part
If you wish to save the game now, and get an Energy Part, go down to the Ammo Recharge Station, then go to the right, shoot a missile at the plant barrier on the left, then charge up your beam and do a spin jump downward until you reach the door to the save room on the right. Go through and save, then go back through the door on the left.
Then climb up the blue wall, use Ice Missiles to freeze the pink plant to the left, jump onto it, freeze the pink plant to the left of that, land on it, then use the Grapple Beam to destroy the Grapple Beam Block on the left. Roll into the tunnel that was revealed. The block to the left is a Missile Block, so roll out of the tunnel and grab the edge of it, shoot an Ice Missile at the pink plant to the right, get on top of it, and shoot a missile to the left, then roll into the tunnel to get the Energy Part.
Get an Item Cube
Then make your way up to the Ammo Recharge Station above.
From the Ammo Recharge Station, make your way upward to reach a Grapple Beam Door at the upper right of the area. Go through it.
Go down from the door and slide through the tunnel on the left. You will fall through a Pitfall Block and there will be a cutscene. You will get the Pulse Radar. Hold right on the directional pad to activate it. It temporarily reveals hidden blocks.
Get a Missile Tank
Use Pulse Radar now to reveal a number of hidden blocks to the right. Make your way through the tunnel, using bombs at the hidden blocks revealed by Pulse Radar. When your Aeion has recharged, you can use it again. If you go upward through the tunnels, you can get a Missile Tank.
Return to Ferenia
Beyond the Missile Tank, there is a dead end, so go back into the tunnels and make your way down and to the right. Eventually you will emerge near a red plant below the tunnels. Shoot it with a missile to get rid of it. Then go to the left and you reach an Energy Recharge Station. Use it if you wish, then go into the tunnel on the left. Go down to the blue wall below, and roll through the tunnel between the two blue walls, using bombs to break the blocks in the way.
At the other end of the tunnel, go through the door on the right. Then shoot a missile at the red plant in the way, use the Grapple Beam to pull the box toward you, and shoot a missile at the next plant in the way. Go to the right to reach a shuttle area. Go right and step on the glowing panel to be taken to Ferenia.