How to safely delete "Equal" files on one side without deleting folders containing unique files?

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Posts: 2
Joined: 24 Jun 2026

deepthys

Hello,

I am using FreeFileSync to compare two large directories. My goal is to find all files that are equal (=) and delete only the copies located on the right side.

After running the comparison, I selected the "=" view filter at the bottom to show only the identical items. However, the list still includes the parent folder paths (hierarchies) in the rows.

My concern is that if I press Ctrl + A and select Delete -> Right, FreeFileSync might delete the entire folder directory from the disk. Inside these folders, there are other unique, unequal documents that are currently hidden by my view filter.

What is the safest, recommended workflow to surgically delete only the equal files on the right side without risking the deletion of parent folders that still contain unique data?

Thank you!
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Posts: 2978
Joined: 22 Aug 2012

Plerry

Never tried this myself, but ...
The Include/Exclude Filter Manual page suggests you should be able
to use an Include Filter of *: (replacing the default * )
Just run a Compare and see if your (equal) folders are still listed or not.
Please share your experience here.
Posts: 2
Joined: 24 Jun 2026

deepthys

Hai Plerry,

Thanks for your response. It worked. Really appreciate your response