Yes, all the needed files for mojoPortal.Features including the dlls in the bin are moved up to correct locations beneath Web by the post build script.
The features projects are never run directly, they are only run via running the mojoPortal.Web project which is and must be the startup project in the solution, but, you can still set breakpoints in the features code and it works just fine in the debugger.
So mojoPortal.Web has no dependencies on the Features projects. The Features projects do have dependencies on the core projects.
Best,
Joe