It looks like the only path specified in that file is related to DataAnalytics, but I recreated it none the less. (I was using a file share to point to the install files. After I rolled back the server I chagned the share to point back to the 9.5 installer.) When I pointed the share back to the 9.6 installer and re-ran it, I received the same errors.
C:\ProgramData\LANDesk\ManagementSuite\Install\9.60\Data\Main\setup.xml
<?xml version="1.0" encoding="utf-8"?>
<SetupXml State="Incomplete">
<Product Name="ManagementSuite" State="Incomplete" Version="9.60">
<CurrentCommand>
<SectionName>Default</SectionName>
<CommandName>MobilityUninstallCommand</CommandName>
<Complete>false</Complete>
</CurrentCommand>
<Section Name="Default" State="Failure">
<Command Name="MobilityUninstallCommand">
<DisplayId>execution_MobilityUninstallCommand</DisplayId>
<Path>msiexec.exe</Path>
<Parameters><![CDATA[/uninstall /quiet /norestart /lv+ "C:\Users\$username\AppData\Local\Temp\LANDesk.Setup.Mobility.Uninstall.msi.log"]]></Parameters>
<ExitCode>1619</ExitCode>
<ResultHandler ErrorHandler="RequireSuccess">
<SuccessReturnCodes>0</SuccessReturnCodes>
<SuccessPermittedExceptionsReturnCodes>10</SuccessPermittedExceptionsReturnCodes>
<RebootReturnCodes>3010</RebootReturnCodes>
<FailureReturnCodes />
</ResultHandler>
</Command>
<Command Name="teUninstallInstructions">
<DisplayId>execution_teUninstallInstructions</DisplayId>
<Path>msiexec.exe</Path>
<Parameters><![CDATA[/uninstall {B1149441-9F6D-4378-A5FC-D6BF38F3EBB3} /quiet /norestart /lv+ "C:\Users\$username\AppData\Local\Temp\LANDesk.Setup.ConsoleConfiguration.Uninstall.msi.log"]]></Parameters>
<ExitCode />
<ResultHandler ErrorHandler="RequireSuccess">
<SuccessReturnCodes>0</SuccessReturnCodes>
<SuccessPermittedExceptionsReturnCodes>10</SuccessPermittedExceptionsReturnCodes>
<RebootReturnCodes>3010</RebootReturnCodes>
<FailureReturnCodes />
</ResultHandler>
</Command>
<Command Name="DataAnalytics_Uninstall">
<DisplayId>execution_DataAnalytics_Uninstall</DisplayId>
<Path>\\$server\landesk\Resources\DataAnalytics\setup64.exe</Path>
<Parameters><![CDATA[/S /f1"\\$server\landesk\Resources\DataAnalytics\uninstall.iss" /Verbose"C:\Users\$username\AppData\Local\Temp\Landesk.Setup.DataAnalytics_Uninstall.log"]]></Parameters>
<ExitCode />
<ResultHandler ErrorHandler="Ignore">
<SuccessReturnCodes>0</SuccessReturnCodes>
<SuccessPermittedExceptionsReturnCodes>10</SuccessPermittedExceptionsReturnCodes>
<RebootReturnCodes>3010</RebootReturnCodes>
<FailureReturnCodes />
</ResultHandler>
</Command>
<Command Name="UninstallMainMsi">
<DisplayId>execution_UninstallMainMsi</DisplayId>
<Path>msiexec.exe</Path>
<Parameters><![CDATA[/x {ABED3F4D-E1BC-4F1C-B39D-837C30AE53B2} /q /lv+ "C:\ProgramData\LANDesk\ManagementSuite\Install\9.60\Log\LANDesk.Setup.LDMS96.msi.log"]]></Parameters>
<LogPath>C:\ProgramData\LANDesk\ManagementSuite\Install\9.60\Log\LANDesk.Setup.LDMS96.msi.log</LogPath>
<ExitCode />
<ResultHandler ErrorHandler="RequireSuccess">
<SuccessReturnCodes>0</SuccessReturnCodes>
<SuccessPermittedExceptionsReturnCodes>10</SuccessPermittedExceptionsReturnCodes>
<RebootReturnCodes>3010</RebootReturnCodes>
<FailureReturnCodes />
</ResultHandler>
</Command>
</Section>
</Product>
</SetupXml>