I'm test driving an automated performance profiling process whereby we kick off the command line profiler on a daily basis and then use soapUI to create a load on the machine with ANTS profiler capturing the performance statistics by monitoring the IIS site for activity.
I've actually gone the route of implementing a project like you've described, and it works, but unfortunately the command line profiler is not feature equivalent to the UI
so I thought it might be related to the fact that I'm using a project.
Would be nice though to just use the command line without a project. There seems to be no reason to use a project as almost all the project options are anyways specified explicitly via the command line itself.
Please consider adding it to make this kind of batch operation testing easier.