Reply to traktor stops receiving input from controller

So this problem has happened multiple times now. I have a vci-100 se, and every so often when I'm in fader fx mode, and I have the gator enabled, the controller will stop working. I can still control everything in traktor itself, but the controller won't do anything. I'm pretty sure this has only happened when I'm using the gator effect because I always remember that really annoying buzzing that won't go away unless i manually turn it off in the traktor program. I have to restart Traktor to make the contoller work again. Anyone know how I could fix this problem?