I purchased my CM HAF 932 last August. My tower style cpu heat sink has two 120mm fans. I connected those two fans to my motherboard. I connected all other fans to the power supply. I do not use a fan controller. I simply let fans operate at full speed.
Your own set-up will depend on what you want. Do you want to be able to control fan speed? If you do, then you can connect a few fans to the motherboard. Motherboards have anywhere from two to four fan connections. The remaining fans can be connected to a fan controller.
There have been numerous threads at Tom's Hardware concerning fan speed. The main reason for reducing fan speed is to reduce fan noise. However, fan noise is subjective. One person's quiet fans are another person's "jet engine".