After you defeat Guzma in the Shady House, you rush to help Lillie in Aether Paradise.
Go to the Elevator
If you need to, you can talk to the girl near the boat to go back to Malie City and prepare.
To the left of the boat, you can battle an Aether Foundation Employee who has a level 37 Dugtrio and a level 37 Sliggoo. You get 1776 Pokédollars for winning.
To the northeast, you can battle an Aether Foundation Employee who has a level 36 Herdier and a level 37 Lumineon. You get 1776 Pokédollars for winning.
North of her, you can battle an Aether Foundation Employee who has a level 37 Shelgon and a level 36 Trumbeak. You get 1728 Pokédollars for winning.
To the left, you can battle an Aether Foundation Employee who has a level 36 Parasect, a level 37 Vibrava, and a level 36 Drifblim. You get 1776 Pokédollars for winning.
To the north, there is a Rare Candy.
To the left of the elevator, you can battle an Aether Foundation Employee who has a level 37 Primeape. You get 1776 Pokédollars for winning.
South of that, you will find an X Sp. Atk.
Go southwest from there to find TM06 Toxic.
Go back to the elevator. When you approach the Elevator, you automatically get on and go up. You will have to battle Aether Branch Chief Faba. He has a level 39 Hypno. You get 4680 Pokédollars for winning.
Afterward, Faba will enter the code for the elevator, and Gladion will ask if you are ready. If you are, say Yes.
Hau gives you a Max Revive.
You can ride the elevator back to the docks at B1F if you missed anything there earlier. Then go to B2F.
Examine the Secret Lab
Go to the right from the elevator and go through the door there. Then go to the right to approach the people who are wearing helmets. You will battle an Aether Foundation Employee who has a level 37 Alolan Muk. You get 1776 Pokédollars for winning.
After that, you battle an Aether Foundation Employee who has a level 37 Magneton. You get 1776 Pokédollars for winning.
Then you have to battle another Aether Foundation Employee. This one has a level 37 Porygon2. You get 1776 Pokédollars for winning.
After a cutscene, go to the right. You can talk to Gladion if you wish. Then go to the right, get the green sparkle to the right of the door, and go in.
You and Hau will battle two Aether Foundation Employees. They have a level 37 Vanillish and a level 37 Machoke. You get 3552 Pokédollars for winning.
Afterward, read the book on the shelf in the upper-right corner, and you can read the computer in the bottom-right corner. Then leave the room.
After a cutscene, go to the left. You can go into Secret Lab A. Nobody is in there, and you can read some interesting files on the bookshelf. You can also read some things on the computer.
To the right of the computer, there is a Full Restore.
Now leave the room and go west to reach the elevator. Go up to 1F Entrance. Hau and Gladion will join you. Then you and Hau have to battle two Aether Foundation Employees. They have a level 37 Pelipper and a level 37 Mudsdale. You get 3552 Pokédollars for winning.
Afterward, Wicke heals your pokémon.
You can go south and use a PC on the desk on the left if you want to switch out your pokémon.
Reach Lusamine
When you are ready, go north. You and Gladion will battle two Aether Foundation Employees. They have a level 38 Electabuzz and a level 38 Magmar. You get 3648 Pokédollars for winning.
After that, you and Hau battle an Aether Foundation Employee, and Aether Branch Chief Faba. The Aether Foundation Employee has a level 38 Ledian, while Faba has a level 39 Slowbro, a level 39 Bruxish, and a level 40 Hypno. You get 6624 Pokédollars for winning.
After the battle, you can once again go south to use the PC to switch out pokémon if you wish.
Then go north to go outside.
After a cutscene, go west, then south, to find a Full Heal. Then go back to where Hau is, and go east from there, then south, to find a green sparkle for the Zygarde Cube.
Go north and you have to battle a Team Skull Grunt who has a level 37 Golbat. You get 1184 Pokédollars for winning.
Then go north and you have to battle a Team Skull Grunt who has a level 37 Raticate. You get 1184 Pokédollars for winning.
Go north and the third Grunt won't battle you. Go north and you have to battle Team Skull Boss Guzma. He has a level 41 Golisopod, a level 40 Pinsir, a level 40 Masquerain, and a level 40 Ariados. You get 4800 Pokédollars for winning.
Afterward, you can once again go south to use the PC or talk to the employee next to the PC to have your pokémon healed up.
Then go north and go through the doors of the mansion.
Check on the table on the right to add another green sparkle to the Zygarde Cube.
Then go north through the doors.
Battle Lusamine
After the cutscene, go north and walk into the glowing rings. After a long cutscene, you must battle Aether President Lusamine. She has a level 41 Clefable, a level 41 Bewear, a level 41 Lilligant, a level 41 Milotic, and a level 41 Mismagius. You get 9840 Pokédollars for winning.
After the cutscene, go south to leave the room, then go south to go outside, and go south to start another cutscene. If you are playing Pokémon Sun, you will receive the Moon Flute. If you are playing Pokémon Moon, you will receive the Sun Flute. You also get a Master Ball.
Go south to enter the main building. Talk to the guy to the right of the door to get a Stick.
If you go south through the building to the outside, you can get another green sparkle for the Zygarde Cube to the left.
To the right of the building, there is a Hyper Potion.
If you are ready, go back inside and take the elevator down to B1F. Go southwest and talk to Gladion, and say Yes if you are ready to go. You'll arrive in Seafolk Village on Poni Island.