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The CPU is retrieved from the ATLAS data center terminal, in an office in the ATLAS substructure during the quest Mother of Invention. The variant of the CPU that is acquired depends on the option chosen when interacting with the terminal. Intelligence 8+ is required to get the CPU in good condition, by performing a proper CPU ejection procedure.
All of the quest items retrieved during the latter half of Mother of Invention, during the "Extract components from the ATLAS machines" objective and including the CPU, are removed from the player character's inventory upon speaking with Scribe Valdez at the conclusion of the quest.
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