Hello Mr. Brooks,
You can try to use the search filter to find them, if you check the "hole" check box under objects tab, you can go under the 'holes" tab and check the "type" there. That will allow you to select punch mark. If you cannot find them after that, you can always send your model to your local technical support.
By the way, because this is an old post, have you been able to reproduce it with the latest service pack?
Regards,