Preparing for Battle
Choose your Pokémon. Deoxys is a Psychic-type that is weak against Ghost-, Dark-, and Bug-type Pokémon. It is especially strong against Fighting-type and Poison-Type, so avoid bringing any to the fight. Deoxys is Level 30, so make sure your party is ready to handle that. To make Deoxys easier to catch, bring a Pokémon with the "False Swipes" move. This will allow you to get Deoxys down to 1 HP without knocking him out, making him much easier to catch.
Stock up on Poké Balls. You will want a good number of Ultra Balls to capture Deoxys. Try to have at least 20 to be on the safe side. You will have a better chance of capturing Deoxys if his health is low, so you may not need as many if you have a Pokémon with "False Swipes." Make sure to have enough healing items for a prolonged fight as well. Deoxys can hit pretty hard, so you may need to patch your Pokémon up after the fight.
Consider your Master Ball. If you've beaten the game, you'll have a spare Master Ball, which can be used to catch Deoxys without a fight. There are other Pokémon you might want to use this on, however, so decide if you want to use it on Deoxys. If you want, you can cheat to get unlimited Master Balls, but you must be using CodeBreaker, a cheat that comes built-in to the Visual Boy emulator. To use CodeBreaker to get more Master Balls, click the Cheats menu and select "List..." Click the CodeBreaker button. Enter "Master Ball" as the description. Enter 82005274 0001 into the "Code" field and press OK. Enter a PokéMart in the game and go to buy something. The pointer will be showing the "Ultra Ball", but you will actually be purchasing the "Master Ball" for $0. Buy as many as you'd like.
Capturing Deoxys
Get to Birth Island. If you participated in the event and received a Mystery Box, you can take the Aurora Ticket to any port and be transported to Birth Island. However, since that was given at an event back in 2004 and 2005, chances are you don't have access to this ticket. If that's the case, the only way to get there is by entering a cheat code. To use CodeBreaker to get to Birth Island, click the Cheats menu and select "List..." Click the Gameshark button. Enter "Birth Island" as the description. Enter 4A99A22B 58284D2D into the "Code" field and press OK. Go into any building. You will be automatically transported to Birth Island.
Disable the cheat. Once you are on the island, return to the cheats list and disable the Birth Island cheat. This will allow you to leave the island after you have captured Deoxys. You will not be able to return to Lilycove City until the cheat has been disabled.
Save the game. Before solving the puzzle, save your game so that you can easily retry if you accidentally knock Deoxys out or your Pokémon all faint. Since Deoxys appears as soon as you solve the puzzle, you will need to save before you solve it.
Solve the triangle puzzle. At the center of Birth Island is a small triangle. You must approach the triangle taking the shortest path each time to make Deoxys appear. Follow the steps below to solve the puzzle: Approach the triangle from below and press A. Move five steps ← and press ↓ once. Press A. Move five steps → and five steps ↑. Press A. Move five steps → and five steps ↓. Press A. Move three steps ↑ and seven steps ←. Press A. Move five steps →. Press A. Move three steps ← and two steps ↓. Press A. Move one step ↓ and four steps ←. Press A. Move seven steps →. Press A. Move four steps ← and one ↓. Press A. Move four steps ↑. Press A and Deoxys will appear and the battle will start immediately.
Capture Deoxys. If you have Master Ball, use it right away to capture it without battling. Otherwise, work on lowering Deoxys' health with your Pokémon until the bar turns red. "False Swipes" will keep it alive at low health. If you have the ability, use "Paralyze" or "Sleep" to make Deoxys easier to capture. Once Deoxys' health bar is red, start throwing your Ultra Balls until it is captured.
Getting Home
Board the S.S. Tidal. To go home, make sure you have switched off the Birth Island code and enter the S.S. Tidal. It can be found in the south part of the island. You don't need a ticket to go home, but you will find yourself in Lilycove City, which is dangerous for trainers with low-level Pokémon.
Go back home. If you're a low-level trainer and want to get out of Lilycove City, you can use codes to go back to your character's home. Click the Cheats menu and select "Lists..." Click the Gameshark button. Enter "Master Code" as the description. In the code field enter: D8BAE4D9 4864DCE5A86CDBA5 19BA49B3 Create a second code and name it "Home". Enter: 6266061B C8C9D80F . Go into any building. You will be automatically transferred to your character's home where you started the game. Turn off the code to keep from returning when you enter a new building.
Save the game. When you've completed all the steps and have a Deoxys, you want to make sure you save the game so you don't lose your progress.
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