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Yes. Select as many calendars as you need in a single WipeAway session. All selected calendars are processed with the same cut-off date.
When you sign into WipeAway, you see a list of all the Google Calendars the signed-in account has edit access to. You can tick any number of these calendars, set a single cut-off date, review the total event count across all selected calendars, and confirm. WipeAway then processes each calendar in turn.
See also: Can I select multiple calendars at once?