There is a very very very very good chance that there is a supported 'silent install' from the vendor. The very nature of the VPN app, is that it will be doing some very low level stuff that does not fit nicely into the MSI standard actions.
I suspect your repackage of the vendor install is at fault. A VPN client needs to load into the network stack which either requires a reboot to complete, or at the very least will stop the network running and then restart it. If all you have done is to capture the changes to files and registry, chances are that you now have no mechanism to insert the VPN client into the network stack. You don't mention whether you have rebooted the system after install, but it is perfectly possible for the MSI to return either 0 or 3010 to show success as it will have completed the installation successfully, but your MSI is fundamentally broken so it does not actually install all the bits that are needed. Equally, if you have forgotten to set ALLUSERS to 1 in the property table, a KACE installation will fail to install any shortcuts as they will go to the profile of the service account being used for the install, which of course does not exist, as service accounts do not have a user profile. If you enable verbose logging, the logfile should give you more information. Just review what the user profile folders resolve to in the directory table list-out.
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