Long...but I had planned to use some PWM fans, and make a fan controller for them, before the Scythe Slipstreams got out and reviewed, so did my homework, and was nearly ready for a decent Mouser order

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With 3-pin fans, you have
+V
0V
Tach
Now, you can control it by changing voltage, or changing duty cycle (common PWM). Both can have negative affects on RPM monitoring. The circuitry needs a certain voltage to work, though, and your mobo sensors need certain voltages to register tach at. With PWM, you're turning power on and off--RPM monitoring flat don't work right. Tach works by going high for half a turn, low for half a turn...so you take off power, and it will go low. Then, low frequency PWM (most PWM control) can cause noise in the fans, from flexing the frame when it turns on/off. many mobos say voltage, but really mean PWM on the power (but some will do actual voltage, and I don't know about the GA-P35-DS3R, and have no intention to test it). Oh, and if you go too low, voltage or PWM, the fan will not run. Much higher than that, it won't start.
With 4-pin fans, you have:
+V
0V
Tach
Control
You send it +12V all the time, you recieve tach all the time, and a ~25kHz signal goes to the fan to tell it how fast to go, with nice linear response from 30% to 100%. The fan itself is responsible for handling control of the speed, and keeping it running. It's an ideal method for fan control. There is no downside to it. Even if it just amplifies, buffers, and passes the incoming signal, it's super-sonic (so no PWM noise). We're just getting a decent amount of these fans available, though.