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Alright, so I beat Episode RR and my first priority is Lillie. She just says "see ya" and took off. Any one know where she is?

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STORY SPOILERS:

She went to Mahalo Trail on Melemele Island, the place where you first met her. She will be there together with Nebby, wich has evolved into Solgaleo in Ultra Sun and Lunala in Ultra Moon. This will be your chance to encounter it (not shiny hunt it because of the lock) and - after you caught it - fuse it with Necrozma.

I don't know where she goes after you catch Nebby, but after episode RR, she will be at Mahalo Trail on Melemele. After you catched Nebby, you can return there to also capture Tapu Koko.

Hope this helps!

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That is pre Elite Four. After you defeat Gladion at the base of Mount Lanakila he will mention that Lillie is a Mahalo Trial with Nebby. He is asking about post game.
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After completing Episode RR, Lillie will be in professor Kukui's lab and after a brief conversation with both Lillie and Kukui, Lillie will ask if she could be your partner at the Battle Tree, allowing you to scout her.

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