Cant't delete Safari history?
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Is your history being restored after removal?
It is one (or both!) of two issues:-
You are running the Mac App Store version and haven't installed the extra scripts:
https://sweetpproductions.com/products/cookie5/scripts.htm -
You need to disable Safari in System Preferences > iCloud
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I have done both of those and it still does not work...
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I think it is actually handoff, which is the culprit.
If you disable Handoff on your iPhone (iPad...) it should fix the re-occuring History