Hey Paul,
Thanks for the response! Our site is an ecommerce site through Magento. I though we had all of the canonicalization set up correctly since we followed this article: https://moz.com/ugc/setting-up-magento-for-the-search-engines
I was under the impression that the canonicalization was encompassed in the Auto-direct to base url setting. But there is also a setting under Search Engine Optimization to enable canonical link meta tag for categories and products. Both are set to yes. Any idea why the canonical tags might not be working? Also, how can we implement the canonical tag in magento for the homepage?