> In properties of that non-working symlink, nautilus shows as target path:
>  "../..\my_NTFS_target"
>   So the 2nd back-slash is the problem

Can you please post the output (on Ubuntu) of :
getfattr -h -e hex -n system.ntfs_reparse_data bad-symlink

With "bad-symlink" to be replaced by the name of the bad symlink.

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https://bugs.launchpad.net/bugs/1172261

Title:
  ntfs relative symlink not resolved

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