There are a few places that "index" might show up in the URL, and all have different meanings. For example, a typical URL might be:
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The first index (the index.php part) is the main OCS wrapper script and you'll always see it (unless you manage to hide it using mod_rewrite). This refers to the main index.php script that's part of your OCS installation.
The second and third "index" refer to the conference and scheduled conference being viewed. You'll either see a particular conference and scheduled conference referred to by a short name (which you designate in the "path" field of the conference and scheduled conference "edit" pages), or you'll see "index", which means that we're not talking about any particular conference or scheduled conference.
FYI, there's more information on how to interpret OCS and OJS URLs in their respective Technical References, available from the Documentation section of each product's web page.
Public Knowledge Project Team