I know this is obvious but hear me out. Use simple text links rather than Javascript links when linking to pages within your own site. For example:
<a href='webpage.htm'>Sub-page about stuff</a>
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Most web designers do this without even thinking about it and wonder why I even bother mentioning this. But there are cases and situations where you'll be tempted to embellish or snazz up your hyperlinks. Eg - using javascript to add some bells and whistles to your links. This renders the link un-indexable by search engine crawlers.
Most search engines crawling through your site will ignore the javascript links and only follow links from text links. Hence only those pages will be indexed by the search engine. There's also the factor that search engines attribute more weight to links with certain keyword phrases. How that works exactly is shrouded in search engine secrecy but the main point is the content of your hyperlink text is a factor when search engine optimising your website.
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