I was able to get lufa flashed to an atmega32u2 on one of the old retired 16u2 dev boards. Like this one
Since apparently the 16u2 is going extinct or at least the breakout boards are, I'm moving to the at90usb162
I grabbed one of these.
I changed my make to at90usb162 but after flashing the lufa via the factory bootlaoder I get "unknown device" installed. My guess is the fuses for the at90usb162 do not match the atmega32u2 but I'm reluctant to try that and would have to solder on an isp. I'd prefer other suggestions.
both breakout boards came with an 8MHz that I replaced for 16 and updated the MAKEFILE.