Apparently, there isn't a way to set files as trusted in the "home" version.
The FreeNet service itself still runs in the background; the executables that McAfee quarantines seem to just be the ones used by the tray icon to launch the browser. For me, that means it isn't a huge problem, because I don't really access FreeNet all that much (mostly, I just run it to support the project). For a while, I had been going in and restoring them manually as needed, but it seems like the real-time scanner may have recently gotten more aggressive about quarantining them, so it immediately quarantines them again as soon as they're restored.
I'm going to try following the directions at https://community.mcafee.com/thread/2016 and see if that produces any results.