Sounds like you may have connected a few things wrong.
QUICKLY Check this USB thing out!!!
Some users have reported to have plugged in their front panel USB Plugs into the Firewire port, BE SURE YOU DID NOT. If you did, please correct this now and pray your board is ok.
The USB ports should be Two Yellow ones, and the Firewire is a single grey port
If you did not, then you may be fine, your case may just not support USB 2.0. You do have USB 1.1 and 2.0 enabled in the BIOS right, just checking?
You do have the latest Intel chipset drivers installed right? If not you can get them here (Second Link from the top EXE File) >>>
Download Search Results
About your HD LED, did you try reversing the wires? You do have it connected into the same section of the front panel header as the case power on switch right? It should go here just to be sure >>>
Have you used this case before? Just checking to see if you know for sure or not if the LED is good