The problem can't be seen using Leo. When Leo opens this outline it overwrites clones (as it should do), so the final result is the same node. The difference is inside the xml content of the LeoPyRef.leo. This problem doesn't prevent Leo from normal functioning. It just makes a large diff if saved without any changes. I suppose it would be enough to commit those changes, but I am not sure which version of the two conflicted nodes would you rather keep.
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