Categories/Tags Not Working After 2.0.2 Upgrade

I upgraded to WP 2.0.2 a few days ago and now both my tags and categories are not working. If I click on them, instead of getting the appropriate page, I now get the homepage instead.

This all worked prior under WP 2.0 and after I upgraded I restored my .htaccess file from the mirror I downloaded immediately prior to the upgrade.

The content of .htaccess is as follows:

<IfModule mod_rewrite.c>
RewriteEngine On
# Redirect FeedBurner to your own Feed
RewriteBase /
RewriteRule ^feedburner_204520/?$ /feed/ [R,L]
RewriteCond %{HTTP_USER_AGENT} ^FeedBurner.*$
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteRule . /index.php [L]
# These Rules redirect all feed Traffic to FeedBurner
RewriteBase /
RewriteCond %{QUERY_STRING} ^feed=(feed|rdf|rss|rss2|atom)$
RewriteRule ^(.*)$ http://feeds.feedburner.com/TheAngryFag [R,L]
RewriteRule ^(feed|rdf|rss|rss2|atom)/?(feed|rdf|rss|rss2|atom)?/?$ http://feeds.feedburner.com/TheAngryFag [R,L]
RewriteRule ^wp-(feed|rdf|rss|rss2|atom).php http://feeds.feedburner.com/TheAngryFag [R,L]
# These are the standard WordPress Rules
RewriteCond %{REQUEST_FILENAME} !-f
RewriteCond %{REQUEST_FILENAME} !-d
RewriteRule . /index.php
</IfModule>

For Tag’s I am using the Jerome’s Keywords plug-in.