|Alternate Second Half|
If you let the colony collide with the Earth (let all the time run out), an intermission scene where Zero is infected with the Sigma virus and becomes a powerful Maverick will appear. For the rest of the game you cannot choose Zero and the dialogue changes for a few of the intermission scenes. Also, Zero fights more aggressively and uses different attacks when you fight him in the third Maverick level.
- Grizzly Slash: Spike Ball/Twin Dream
- Duff McWhalen: C-Shot/C-Sword
- Squid Adler: G-Shower/F-Splasher
- Izzy Glow: Tri-Thunder/E-Blade
- Dark Dizzy: F-Lazer/C-Flasher
- The Skiver: Dark Hold
- Mattrex: Wing Spiral/W-Shredder
- Axle The Red: Ground Fire/Quake Blazer
- Rock Monster: Tri-Thunder
- Robo Mask: X-Buster/Z-Saber
- Zero or X: F-Lazer/C-Flasher
- Sigma 1: X-Buster/Z-Saber
- Sigma 2: X-Buster/Z-Saber
|Destroying The Colony|
To destroy the colony, get it as close as possible with at least 3 parts -- i.e. the lower the hours, the better the chance of destroying the colony with the Enigma.
Legs: In Grizzly Slash's area, after the train section in the caves there is a opening -- use C-Sword.
Body: In Duff McWhalen's area where the water drains, use G-Shaver and open the blocked Capsule.
Head: In S. Adlers's area, collect all the E. Spheres on the bike ride.
Arms: In Izzy Glow's area, after the spiral stairs, destroy the Plazma Cannon and get the arms once past.
Head: Before Dark Dizzy's chamber is a pit. Go in and use the F-Laser to blow it up from inside.
Body: Just before the third lift, use the Falcon armor to find the well hidden Capsule.
Arms: Instead of going up the end vines, keep moving right and use double jump.
Legs: During the second rope climbing section there is a opening. Fly up with the Falcon Armor and get the legs.
|Get All Armors For X And Zero|
Start the game with X and make sure you have the Fourth Armor. After destroying the colony (make sure Zero does not become Maverick), go to the third Maverick stage with either X or Zero. After getting the armor, die constantly and go to stage selection screen when the game ends. Then, go to the stage again, but with the other hunter. For example, if you went with Zero first, then go with X next or vice versa. Look at the left side of the stage selection screen to find the Fourth Armor, Black Zero, Ultimate Armor, Gaea Armor (if you have it), and Falcon Armor (if you have it).
|Megaman X4 Appearance|
Start a training level with X or Zero. Get to the end of the level to find Magma Dragoon, a maverick from Megaman X4. Also, make it to Maverick Base level 3. Play this level as Zero to fight X, who will use moves from Megaman X4 such as Soul Body, Frost Tower, and Double Cyclone.
|Ultimate Armor For X Or Zero|
Go past all of the spike traps in the third Sigma level. You will reach what appears to be a pit. Slide down the right side of it until you fall into a room that contains a capsule. Step into the capsule to obtain the armor. When playing as X, you will have to intentionally die and restart the level to use it. Zero will automatically equip it.
|X Buster's Super Nova Armor|
At the character selection screen, highlight X, then press Up(2), Down(9). If you entered the code correctly, you will hear a sound. Then, press Circle. You will start with Super Nova Armor from Megaman X4.
|Zero's Black Armor|
At the character selection screen, highlight Zero, then press Down(2), Up(9). If you entered the code correctly, you will hear a sound. Then, press Circle. Zero's Black Armor will reduce damage slightly as compared to his Red armor.
|Zero's Slash Combo|
Press Square(2), Back, Square for a 4-hit combo which works on any Boss.
|Zero's Supreme Slash|
Either press Dash + Slash, or press Forward, Forward + Slash.
Note: This is the best move to use to finish some of the Bosses.