Have you fixed this issue yet?
I had a similar problem and so have many others. It seems to be almost the default occurrence when something in LP is setup wrong. My issue was that when I saved my Transmitter setup to the board just after choosing what command would arm my CC3D, I had my throttle stick down. This is a habit I have from years of flying models. This caused an issue with the arming procedure. I fixed it by redoing Tranmitter Wizard and being sure to center my throttle stick before I saved to board after choosing my arming command.
Hope this helps