custom msi does not hold settings

I am using DameWare Mini Remote Control version 11.  I am trying to deploy the agent to all of our workstations.  I have read in the help file that I can create a custom msi by first installing the agent, configuring it, and then I can build an MSI with those settings.  I have followed those steps but the msi created only has the default settings.  It looks like it can be created using a settings profile, but I can't see anywhere, where I can create a profile.  Any help is appreciated!