I have reported this error already for RC1: "https://forum.team-mediaportal.com/1-0-rc1-svn-builds-270/files-directories-virtualstore-38271/", but in RC3 there are still config files that have either the wrong place or wrong permissions, so they are redirected to VirtualStore by vista with UAC on.
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\Gentle.config
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\MediaPortal.exe.config
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\xmltv
...\VirtualStore\ProgramData\Team MediaPortal\MediaPortal\keymap.xml
...\VirtualStore\ProgramData\Team MediaPortal\MediaPortal TV Server\log\streaming server.Log
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\Gentle.config
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\MediaPortal.exe.config
...\VirtualStore\Program Files\Team MediaPortal\MediaPortal\xmltv
...\VirtualStore\ProgramData\Team MediaPortal\MediaPortal\keymap.xml
...\VirtualStore\ProgramData\Team MediaPortal\MediaPortal TV Server\log\streaming server.Log