Not sure if this is relevant to the discussion
http://developers.slashdot.org/article.pl?sid=04/12/07/2019244&tid=93&tid=172&tid=8
"/we can create 'doppelganger' blocks (my term) anywhere inside a file that may be swapped out, one for another, without altering the final MD5 hash. This lets us create any number of binary-inequal files with the same md5sum. But MD5 uses an appendable cascade construction -- in other words, if you happen to find yourself with two files that MD5 to the same hash, an arbitrary payload can be applied to both files and they'll still have the same hash."/
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