The newest version seems to be CF/SD card only, I assume you are talking about this version:
http://gpf.dcemu.co.uk/Frodoc64.shtml . Unfortunately I have not got the necessary hardware or desire to convert it for mine.
From the site:
Instructions
copy your .D64 c64 disk images to a folder called /rd on the root of your cf/sd card
startup the emulator and it will allow you to select the d64 disk to mount on drive 8
you can press the right trigger to have it automatically type LOAD"*",8,1 and then RUN .
note. You might want to test the .d64 file on another version of Frodo to verify that the d64 is compatible with Frodo.
while playing games the dpad and a and b buttons are used for your joystick
press select to switch between port1 and port2 that the joystick is in.
dpad directions up,down,left,right
a button joystick firebutton
b button space key