The focus point info is contained in private Canon MakerNote metadata which is preserved when converting to DNG, even with current DNG Converter versions.
Thank you for your answer. So what you are saying is that for some reason Apple's Aperture is no longer reading these MarkerNote metadata correctly?
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I don't really know how Apple's software deals with the MakerNote data, but I can confirm that the MakerNote is contained in the DNGs produced by DNG Converter.