How do I give JavaScript variables data from ASP.NET variables?

Probably best easiest to expose them as properties of your page (or master page if used on every page) and reference them via page directives.

 <script type="text/javascript">
     var userID = '<%= UserID %>';
     var courseID = '<%= CourseID %>';

     .... more stuff....
 </script>

Then set the values on Page_Load (or in the Page_Load for the master page).

  public void Page_Load( object source, EventArgs e )
  {

        UserID = Session["userID"];
        CourseID = Session["courseID"];
        ...
  }