PrestoSoft Community

Is there an option to ignore a file if it has moved directories i.e. it is present in both directory trees but in different locations or highlight it as "moved"?

No, there's no such option.

Something for the "wish list" perhaps?

Maybe. It's hard to imagine how EDPro would handle this though, since it compares directories by matching identically named files in same locations on the directories subtrees.