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We have had Go To Assist for a while, yes we have also noticed the severe decline in quality once LogMeIn took over. Anyway, we have had this issue on and off for a while. Per their documentation I can take the MSI installer for unattended and deploy to 5,000 machines. This works 50% of the time, when I call support it seems no ones know what I am talking about. I have done some digging myself:
In the "failed" install, the application will install but will not setup unattended support automatically, it still needs to be setup by right-clicking the icon in the sys tray. Downloading a "fresh" installer from the website and running it seems to work, however the version number is the same as the installer that does not work, 126.96.36.1990.
So basily I have 2 installers with the same version, one works and one doesnt and I am not sure why this is. Furthermore, if I image 3 machines, somtimes 2 will fail to setup unattended but one will be fine, this seems to be random.