links not updating correctly with a dreamweaver cs5 template

I have been using a template for years to update pages in multilevel subdirectories.  It has always kept the proper notation to maintain links.  With the latest modification all the links are broken.  For example a menu line in the dwt file is

          <li><a href="index.htm">Home</a></li>                 originally produced a line of code for a page several directories down as

          <li><a href="../../../../index.htm">Home</a></li>     now the line in the updated page becomes

          <li><a href="index.htm">Home</a></li>

Any idea why this occurred and how it can be fixed?