I finally was able to figure it out. Apparently, the thing with the 4/5 first pads has to do with the USB 3.0 connectors. After several hours trying different ports, many reinstallations of the CFW and driver, connecting the damn thing in a USB 2.0 port solved it. Now it works properly, with all the colors responding to the game.
I hope this help you and others too.
:D