I'm not familiar with that case personally, but if you can turn the red LED on and off now you should beable to do the same with the blue. The only thing your changing is the LED not the controller.
edit: I thought you were just switching out the LED not the whole fan. It's going to depend how its wired. I would just try and wire the blue fan the same as the red. Does the red fan have 2 plugs? 1 for fan 1 for LED?
edit: I thought you were just switching out the LED not the whole fan. It's going to depend how its wired. I would just try and wire the blue fan the same as the red. Does the red fan have 2 plugs? 1 for fan 1 for LED?