Does google hammer your site for having way too many clickbank links? Or do you use some sort of a redirect or cloaking script? I am yet to find a perfect answer to the google search engine rankings and affiliate links question.
google is not against clickbank links on any web page. google ranking depends on incoming links, outgoing links, link popularity and other seo factors. Regarding clickbank mall, it is inevitable to have more links on the main page (most of them will be internal links). And it is possible to use less outgoing links on the inner pages.
So you feel google is ok with clickbank links? Even if I have it on 10,000 internal pages of my site?
place rel="nofollow" for your direct clickbank hoplinks (out going links). That will be ok with google or any search engine.