Use this
Dim xmlDoc As XDocument = <?xml version="1.0" encoding="utf-16"?>
<!-- This is comment by you -->
<Employees>
<Employee id="EMP001">
<name>Wriju</name>
<![CDATA[ ~~~~~~~...~~~~~~~~]]>
</Employee>
</Employees>
'it assume that /youfolder is in the root and it has read and write permission
xmlDoc.Save(Server.MapPath("/yourfolder/somefile.xml"))