I've got a wind sim powered by SimHub and I'm using a motorshield. The fans emit a high-pitched sound when operating anywhere below full speed. The SimHub documentation makes note of this.
The sound is kind of annoying. Since I'm using the HP Reverb G2's speakers, I can hear it when the audio is turned down. If you've got a closed-ear headphone set, you're unlikely to hear it.
I made plans to construct another wind sim using PWM fans, about 6 months ago, but haven't gotten around to it; so it's not terribly annoying, either.
Also, my motorshield has 4 outputs for motors/fans, but it can only power 2 Noctua fans effectively. I think PWM fans are ideal because (I'm guessing!) you can send the PWM signal to as many fans as you'd like, since they're drawing from an independent power supply. I haven't confirmed whether this will work, though, so I may be wrong about this. The SimHub documentation states that the Arduino supports up to 3 PWM fans, but I'm interpreting it as 3 different PWM signals.