Citrix Xenapp 6 - Published Desktop disconnects when published application is launched from within a published desktop

When you attempt to launch a published application from within a published desktop session, the published desktop session will disconnect. This is because Citrix receiver by default tries to reconnect to all your open sessions on launch. So when you attempt to start the published application, it disconnects the session of the published desktop. You can modify this behavior by changing the following registry key.

[HKEY_LOCAL_MACHINE\SOFTWARE\Wow6432Node\Citrix\Dazzle]
"WSCReconnectMode"="0" 

Change this key on your published desktop. Once this is modified, relaunch the published application and your desktop session should remain intact.