1) The PDF docs currently include an empty "Copyright" string in the header. dita2fo-shell-copyr1.diff.gz is a patch to fix the fop (.pdf) copyright header which is currently blank. This is from march 9, 2006.
2) Some source files have the old style copyright in the header that is not in compliance with http://www.apache.org/legal/src-headers.html. For example, see src/ref/rrefsistabssyscolperms.dita
3) The generated html docs have new copyright tags added, such as these entries in ref/crefjavbclobnot.html
<meta name="copyright" content="(C) Copyright 2005" />
<meta name="DC.rights.owner" content="(C) Copyright 2005" />