Duplicate Feeds after upgrading 2.3 to 3.1

After upgrading, I've noticed my feed has duplicated entries- is this
because the permalinks have changed?

Even stranger, I have my blog subscribed to java.blogs with:

http://www.raibledesigns.com/rss/rd?catname=Java

Not only have they received duplicate entries, but it's also pulled in
an entry from my "General" category (Dad makes local Montana news).
Any idea how this could have happened?

http://javablogs.com/ViewBlog.action?id=10290

Thanks,

Matt

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http://raibledesigns.com