Thanks again for your help...
I deleted the guide references as you recommended, leaving only the toc and "start reading" reference – and now I am getting another set of warnings.
This is what I presently have in the guide section.
<reference href="Text/Section0004.xhtml" title="Table Of Contents" type="toc" />
<reference href="Section0010.xhtml" title="Text" type="text" />
<reference href="Text/eFT_FrontMatter.xhtml" title="Cover" type="cover" />
I am attaching a screen shot of the info generated from KindleGen. I haven't changed anything else in the file and now the hyperlinks aren't working?