Theme Switcher Plugin Losing Parts Of My Themes

I have the theme switcher plugin installed for uaw.isynergyohio.com, I'm trying to use it as a way to demo my client concept sites. I activated about 12 themes for that site and was going along fine until I switched to the 3rd site in the admin to start editing it. When I did now the menu goes away on one theme, and the logo image goes away on another. When I switch back to making those themes the active theme, the problems go away. Until I switch back off of it.