in the back of the base, but they get away with it.
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Get it back. People shouldn't steal.
you will find team aqua in the under water cavern near the dive point in sootopolis
You go to Mossdeep and defeat the Gym leaders there. Then Steven will give you the HM move dive. Then you can go south of Mossdeep to find a trench. You use dive here (with a pokemon that learned it), and go south until you find a cave area . Go in and there should be the submarine. Press B (this reverses dive) and you should come up to where the team took the submarine. Go into the cave located here and you should find Team Aqua. At the end of the cave you will find Aqua Leader Maxie trying to awaken Kyogre. Just like with Groudon, Kyogre just leaves. Then you may go to Sootopolis and see the show.
At a cave under water in route 128 :)
Find the submarine Team Magma stole and defeat themand awaken Groudon