A couple of notes:
The drive cooling is indeed a slight problem. I have made some mods and added two slim side fans.
I plugged the cage coolers into the two cage plugs, as instructed by the manufacturer.
I'll see how the temperatures go. I might make some other modifications.
I can't get the case fans to register with the Dynamix System Temperature plugin. I've tried adding modprobe nct6775 to the go file.
It might be due to some BIOS setting?
The USB kept getting unmounted from the internal USB port. This might have been due to the fact that I it has been exported as a share.
Anyway, I turned off the export setting and moved the USB to the back panel. This seems to have solved the issue.