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If you're talking about the dropdown speed you can follow this guide to replace the default superfish args with a custom one.
http://code.garyjones.co.uk/change-superfish-arguments/
The option you will need to change is speed. You'll probably want to set it to fast.
Brian to the rescue again...
http://www.briangardner.com/custom-archives-page/
You would need to modify the loop slightly to only include the category you want to display and you probably would want to name the file a little differently (using the category name or something similar), but this should get you going in the right direction.
You shouldn't need to drop down that menu for what you're trying to do. I tested this on my site and I've noticed the same issue when trying to filter tags. It works fine with categories but for some reason it isn't filtering tags correctly. I'm running WP 3.5. What version are you running?
I'm going to see if I can debug the code and I'll also tweet this thread to Nick since he'll probably be able to fix it faster.
If you're using a Genesis theme you can follow Brian's guide for creating a Genesis-friendly custom post type. Just replace the references to "code" with references to "faq". Everything should still basically function the same way.
http://www.briangardner.com/custom-post-types/
Personally I would put something like this into a simple plugin so you can continue to use it if you change themes, but you can drop it right into functions.php the way Brian has if you prefer.
I checked out the code on your site quickly and I noticed that you are already running Yoast's plugin but you don't seem to have the sitemap feature turned on. Make sure you enable it.
Those additional tracking tags in the RSS link url appear to be appended by another plugin, possibly the Yoast Google Analytics plugin. Check the settings of that plugin and any others you have installed to see if you can disable the additional tracking snippets.
If you're not already, make sure you also use Google Webmaster tools and track any errors and issues through there as well.
Your first issue appears to be a rel=cannonical problem. Install WordPress SEO by Yoast and these links should gradually fall out of the index.
http://wordpress.org/extend/plugins/wordpress-seo/
The second issue can be easily fixed. Just use this guide from the codex:
http://codex.wordpress.org/Moving_WordPress#When_Your_Domain_Name_or_URLs_Change
Editing the .htaccess file using redirectmatch or mod_rewrite should be fairly straight forward, but if you have any issues setting it up manually you can use this plugin:
http://wordpress.org/extend/plugins/redirection/
