America: Charlotte (Free Quest) is the best AP-saving & time-saving location to farm Void's Dust. You'll get around 6x Void's Dust by spending 200 AP.
Fuyuki (Singularity F): Unknown Coordinates (X-F) is the first location you unlock to farm Void's Dust.
Shadow Servants drops Void's Dust. So you can get Void's Dust from Daily Quests as well.
Here is a list of servants that need Void's Dust to perform Ascension and Skill Up.
Rashoumon event (Ibaraki Douji event)
Murder at the Kogetsukan
Inheritance of Glory
4th Singularity: London
5th Singularity: E Pluribus Unum
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How to farm EXP cards & level fast
Piece of Year 2030 (A Fragment of 2030)