Hi Xah,
Thank you again for your interest. I'm having some small issues with both keyfreq and ergoemacs, both right up your alley!
But I can already feel the difference in using your level 2 ergo keybindings - thanks for that.
I am running keyfreq 2016-05-16.716, same as you.
I use a modern Windows 10 machine, running Emacs 24.4.1.
I did as you asked, and yes, the entire output appears in the *Messages* buffer. Go figure.
I have attached a screenshot of the Messages buffer.
Booting emacs, then running keyfreq the first time, output shows in *frequencies* buffer correctly.
Change windows to the buffer, kill the Messages buffer (don't know if that is significant),
run keyfreq a second time, and it spews output to the minibuffer and takes over my screen,
as a previous screenshot showed.
Why twice? I do not know.
ErgoEmacs seems to mess with my local buffer keybindings on the second round as well.
So either it's my setup, or maybe it's both Ergo and Keyfreq... :-) Interesting problem.