I've heard buzzing from my computer when I hooked it up to a bad power inverter that was putting out 150 volts. It worked fine but it was so loud people heard it through my mic! "Check your mic cable" Bro it's not the mic XD XD XD It was also a grounding issue as well, as the inverter wasn't wired correctly. I guess my point is, it's fairly normal for a power supply to whine when it's working hard. So depending on the load and how you wire it, you can get different amounts of noise. Maybe create your own fan profile to test to fan noise. Some fans can create some funky noises when they spin down real slow, and increasing the minimum speed should avoid this. I use noise canceling headphones myself :D
Edit: Maybe with the case off go sticking your ears around/directly on suspect components to try to find out what's making the noise