You rocks! 
For information I use a arduino micro but to make it work you need to tell CCLoader that it's a leonardo by using this command :
"CCLoader.exe <Firmware.bin> 1" instead of a 0
Also with a voltage divider with resistor I couldn't make it works. So in last chance I tried by directly connecting the wires to the arduino pins and it works at first try
For the missing crystal by now I don't see any problem, I even try to discover ibeacon in ROLE1 with the AT+DISI command and it works!