Views 3 fields as list
You can add the Term:ID and set the link to the term in 'rewrite results' as:

taxonomy/term/[tid]


If you want to keep the aliased URLs, you can use Global Redirect module.


  Once enabled, an alias provides a nice clean URL for a path on a site.
  However Drupal does not remove the old path (eg node/1234). The
  problem is that you now have two URLs representing the same content.
  This is dangerous territory for duplicate pages which can get you
  sandboxed by the search engines!