I'm having the exactly same problem here.
I'm using ASUS Z87-Pro motherboard with no USB 2.0 ports, only 6 USB 3.0 ports.
I tried to connect each of it. I'm using Cooler Master HAF series full tower case with two USB 2.0 and one USB 3.0 port, didn't worked either.
But my Leap Controller is working fine with my Macbook Pro and HP Laptop (Win 7).
But in my PC (win 8.1) it just blinks as sindre2104 mentioned.
I tried every method here, my hubs are connecting such as logitech usb mouse, 2 usb headed Tt e-sports challenger ultimate keyboard, logitech wireless keyboard, shure x2u mic interface connecting audio technica 2020 condenser mic, inca usb wireless reciever.
I'm considering it's not having enough power from computer? Maybe my PSU is not enough? (having intel i7-4770k and stong GPU with low watt capacity power supply). But that can't be problem because it works completely fine with Macbook Pro.
EDIT Just tried the 2.02 Skeletal update, didn't worked for me either. Just started to blink faster and sometimes i can see logo turining green.