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I have a site that is themed pretty well and uses sub-domains. I have a question about linking within the site:
On the index page, should I have a link to the sub-index with some descriptive text, and also links to the pages underneath the sub-index?
OR
should I only have links to the sub-index with descriptive text?
Is each subdomain a pretty flat structure?
If it's flat, I'd only link to the subdomain indexes. If it's multi-tiered, I'd consider linking to the subdomain indexes and "level 2" pages. But either way, look at the main index page... make sure it doesn't end up cluttered, or looking like a copy of your site map. ;)
I agree with littleman about the cross-linking between the canonicals. These can really work for you or they can work against you if not done correctly. I like to cross-link the third level where possible because this is often the most defined of your topic, i.e. the specific product or service and if it can also be defined with a separate canonical and then linked at this level, you've got some good side linking. Unless I can really justify in my own mind the quality of the link, I veer on the side of caution.