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Will this fan controller work?

That fan controller should work as long as the fan is not a 4 pin PWN controlled fan. Although I must say 50W per channel is a bit overkill, but it will still work. I recently put in the NZXT Sentry 2 and love it. I lost my LED functionality on the fans, but that is due to the default case fans being real weird.
 
I would think with those fans, the fan controller would not be needed and could even be detrimental to their operation since fan controllers change the voltage input to the fans and those fans are designed to run autonomously. I could not find what kind of power connectors those fans use - I'm sure it is not PWM (4 pin) but it could be 2 pin, 3 pin or molex, that is good to know information when planning your setup and leaves me a little dumbfounded.
I would say either change the type of fans to ones you know have a 3 pin connector (best for use with a controller) or simply drop the controller for those fans
edit: the more I consider this, the more convinced I am that the fans are molex (but I still don't know for sure)