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During Chapter 6, the player and their player are asked to sent here by Chatot, due all to the Perfect Apples in the guild's food stock having disappeared for mysterious reasons. At Deep Apple Woods, Team Skull appears and takes away all the Perfect Apples there after knocking out the player and their partner.
- Butterfree and Combee is exclusive to Explorers of Time and Sky.
- Beedrill and Burmy is exclusive to Explorers of Darkness and Sky.