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Thanks everyone for the insights and for taking the time to help. I'm using the WP All in one SEO plugin and will continue to leave the tag pages set to noindex.

Hi, SEOmoz does have a market place, many great professionals there http://www.seomoz.org/marketplace, if you want to take a look yourself run your site on the SEOmoz campaign tools, you will see errors, 404s, duplicate content, anything that could be hurting your site from within, also use the http://www.opensiteexplorer.org/, to check if the links are still there or if you left out any pages that were getting links. i don't really trust GWT that much, the data is just too weird some times: back links that don't exist, strange 404s, etc. By experience I found that every time I have some broken links, even if they are only 50-100, GWT shows me like 10.000 new errors, after they are fixed, the errors on GWT start to go down too. Some times huge design (code) changes can affect your site rankings on Google for a while, based on the an idea like: "if the people who link to you saw your site now that is different, will they still be linking to you?". I wouldn't mind to take a look

The best course of action is to 301 all of the pages as: There may be some links to these pages These pages may presently be carrying some authority which would be transferred to the new pages (i.e. where the 301 resolves)

Yes it can, what technology did you build your site with, I am a .Net developer I cam instuct you if it is .Net, someone else can do so if it is not .Net