Metroid Fusion/Main Deck 1

Main Deck - First Visit
After the opening sequence, the ship's computer will tell you that there has been an explosion in the Quarantine Bay and it'll show you the source of the explosion the map. The computer orders you to investigate the cause, but to first link up to it at the next Navigation Room. Go left until you reach the end of the corridor, then jump up the platforms past the red door to the next open hallway. Run all the way left into the Navigation Room, then step on the platform to uplink to your ship's computer. It warns you that bio-signs have been detected, so be careful.

Leave on your left and jump up the platforms to the top of the room, then head left again. Drop down and go into the room on your left. Now we're in the Quarantine Bay. Go to the end of the room, and you will see the enemy Samus encountered in the beginning sequence of the game. Kill it with your beam and then leave, noting the destroyed crate. Shoot the door to open it on your way out.

The X Revealed
Head back to the Navigation Room and uplink to the computer. It'll explain all about the X Parasites, so read up! Remember that you can now absorb free-floating X to restore health and weapons. The computer will also release the lock on all Level 0 locks for you - that would be the gray doors. Your next destination is a room to the far east of the Main Deck, so let's get going.

Exit to the right and jump up the platforms until you see a gray door. Shoot it open and kill the enemy inside. Go through the next door and into the Save Room. You can save your game now, if you'd like. Afterwards, continue on to the next room, then jump up the platforms a bit until you see a purple zombie-like enemy. Kill it and continue upwards, stopping in the Navigation Room to uplink to the computer. It seems HQ has sent some downloadable missile data for you, and it's not far off.

Leave the Navigation Room and jump up to the gray door above you. Go through and then stand on the elevator. Press up to go up. Samus will think about how the computer reminds her of an old friend named Adam, so from here on this guide will refer to the computer as Adam.

After the elevator ride, go through the door and use the Recharge Station and Save Room on the bottom floor if necessary. Then head up through the next set of doors, through the Navigation Room to the Data Room. Stand on the platform to download the missiles. To use missiles, hold R and push B. If you ever need to restore them, absorb a green X Parasite or use a Recharge Room. Head back to the Navigation Room you ran through and talk to Adam. He'll tell you the elevators are offline, so you'll need to find another way out. Jump straight across to the platform on the far right. You should see a glowing red thing on the wall. Shoot it with your missiles, then jump in the secret tunnel.

You'll see a weird green thing just inside; three missiles will destroy it. Stand where it was a moment before to fall through the floor, then jump to grab the edge of the wall to your left and climb up and over. Shoot the crumbly part of the wall and go through. Watch out for the enemy that spawns just below! Kill it, then walk to the right and fall through the floor again. Then, head left and fall through that floor. Head right, jump onto the ladder, and climb up and over. Fall all the way down until you see the missile tank upgrade; pick it up to get 5 more missiles! Fall to the floor below you and head left. Jump on top of the first ledge and shoot the top part of the second one. Another missile upgrade! Take it for a total fo 20 missiles total.

Head back and kill the enemy, then continue to the right and go through the wall. Kill that enemy. If you want to save before you fight the first boss, head up to the top and go through the door on the right - it's a Save Station. After that, head back down and go all the way to the right. There will be a weird red thing on the door!

To get rid of it, shoot it with a missile when the pupil is showing. If the eyeball is all yellow and flashing, get ready to jump out of the way, because it's going to shoot a huge beam attack at you. Be careful of the enemy right behind you too - it keeps coming back. Once you destroy the eye, a red X will appear - they restore all of your health and ammo until late in the game, when they only restore most of it.

Getting to the Boss
Go through the door and jump to the ledge. Then, hold left and jump up to grab the next ledge. Repeat this until you get to where the energy tank is. Once you're on the platform with the energy tank, grab it for an extra 100 health, then stand on the very edge of the platform and shoot two missiles straight up. Jump up there and head to the right for a second energy tank. Now you have 300 total energy!

Head back and jump down the hole on your left. A boss battle will commence! See the bosses section for information on defeating the Morph Ball Guardian.

Once you have the morph ball, push down twice to enter ball mode and roll out the left exit. Jump over the rubble and head to the end of the hallway, then jump to grab onto the gap and push up to roll into it. In the next area, climb the ladder and roll under the gap. Then, climb the ladder you just rolled under and shoot out the crumbling wall. Jump to the edge and roll through it, then immediately shoot the two enemies. Head left and jump up the platforms until you see another green thing blocking a door. Shoot it and go into the room. Recharge if you need to, then go back out and jump up to the Navigation Room. Link up to Adam. He tells you that at least one of the breeding environments has been breached!

To Sector 1!
Head out of the room and go to the bottom level of the hallway. Go left, save here if you want, then continue on through the next room and jump down to the bottom of the next room. Head left, go past the Navigation Room, and jump up. Turn into a ball and roll into the room on the right for five more missiles. Head back and jump up into the next room. Jump across the gap and roll underneath the gap. Run until you get to the elevator, and go down. You'll see something that looks like Samus blow it's way through the doors. Good thing you missed it; it looked tough.

Once you get off the elevators, head left into the first room and go down. You'll enter Sector 1 (SRX). Talk to Adam in the Navigation Room and he'll show you the area's map. Adam then reports that the atmospheric stabilizers are malfunctioning - it's probably the X's doing. Head right into the Save Station and save.