When Adobe Acrobat Reader X is published on XenApp, users can choose a menu option to repair the installation. This option results in a server reboot.
Use Javascript to hide any unwanted menu options in Adobe Acrobat Reader by creating a file called HideMenu.js with the following line:
app.hideMenuItem("DetectAndRepair");
Place the file in C:\Program Files (x86)\Adobe\Reader {version}\Reader\Javascripts
The repair option should not be visible in subsequent launches.