I'm able to see the final parse HTML without the masterpage theme. I hope that makes sense.
When I open the MasterPage.master on the server where I deployed the website. Under the DESIGN view, I see the following error: Error Creating Control - ScriptManager1 Cannot find web project item 'D:\WesiteDevelopment\PlanetWrox\Release\MasterPag e.master'.
I did double check if the MasterPage.master exist within the directory listed above and it does. The same message is displayed for Menu1, TreeView1, SiteMapDataSouce1, CPMainContent. Not sure if this just means the Controls hasn't been compiled.