There was an issue introduced in the Rules Installer v1.10 that caused the Agent's Tamper Protection to prevent a clean uninstall of the App Control Server, leaving behind a "Delete" registry flag. Subsequently, the OS will delete the services after reboot which causes the App Control Server failure.
HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\ParityServer\DeleteFlag HKEY_LOCAL_MACHINE\SYSTEM\CurrentControlSet\Services\ParityReporter\DeleteFlag
"C:\Program Files (x86)\Bit9\Parity Server\parityserver.exe" /register /dsn "C:\Program Files (x86)\Bit9\Parity Server\shepherd.dsn"