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One of my sites is fairly large with about 40,000 pages and we have several fairly large affiliate partners, one being a search engine.
This particular affiliate partner (AP) was given a subdomain on our main domain, so it reads: AP.MYDOMAIN.com. We host and control all of the content on this subdomain. We have about a dozen sub domains like this for a dozen other affiliates.
My question is, what is the best way to utilize these sub domains? If I install links on these pages pointing to my main domain, will it help my ranking any or would this be considered internal linking? If I put all the sub domains on different C block IP's, would that make it any easier? I guess I need someone with sub domain linking experience to offer me their 2 cents.