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Well...
When you enter the Aqua hideout for the submarine, you should have explored the hideout to find the masterball in Archie's office.
If you left the hideout before finding it and Archie summoned Kyogre, you're in trouble.
So you need to get it in the first opportunity you've got, RSE isn't nice unlike other games where either someone hands you the Master Ball or someone calls you to get it.
What else can I help you with?
Masterball Pokemon saphire?
You find it in the team aqua hideout.
Where can you find a masterball on pokemon sapphire?
In team aqua's hideout
How do you get 1 masterball in sapphire?
you will find one in team aqua's hideout
Where do you get masterball in Pokemon ruby?
theres one materball in team magma/aqua hideout
What are the things you need to catch latios?
get the masterball inthe hideout of team aqua then find latios
Where do you get a master ball in emerald?
You get it in team aqua's hideout near lilycove. You need a Pokemon that knows surf to get to the hideout. Another way to get masterball are hack and cheats
How do you get 1 more masterball in emerald exept by cloning and cheats hacks and trading?
In department stroe or in team aqua hideout
What are you supposed to do on mt pyre?
you are supposed to beat team aqua to get into in team aqua's hideout you are supposed to beat team aqua to get into team aqua's hideout in lilycove city
What to do in the team aqua's hideout?
battle all team aqua
How do you make the whales go away in Lilycove city in Pokemon ruby?
you go to mount. chimney go down the side and a new cave will open up and it is a team magma hide out when you beat them go to saleport then when team aqua takes the submarine got back to team aqua hideout and beat them then they will go away also team aqua hideout is where you get a masterball
How do you get into team aqua's hideout on emerald?
after getting into team magmas hideout
Where is team aqua's hideout sapphire?
You can find team aqua's hideout in the east side of Lilycove City in Pokémon Sapphire.
