AecDuck,
I appreciate any effort you put into finding the cause of this defect, as there is NOTHING I would love more than to get past screwing around with this product, and get back to making music. So if you are able to reproduce it, please let us all know what the problem is.
In response to your questions:
1) I am not using a power conditioner. However, I use several other audio interfaces in my system, and NONE of them have any similar problem to the one with the Duet. I have also tried this in two different geographic locations, on three different setups/computers, and it does the exact same thing on all of them. One of the setups is a Powerbook running on batteries, and the same problem occurs there. So it would not seem to be related to my power supply.
2)Re: the breakout cable - the noise occurs even if the breakout cable is completely disconnected. It also occurs with the breakout connected, and a mic plugged in. So it does not seem to be the breakout (although it is totally flimsy looking, with wires the size of spaghetti noodles that I can't imagine are very well insulated).
3)I'm using a $120 Monster XLR cable, that is very well insulated, and that generates NO NOISE WHATSOEVER on any other audio interface with which I've used it.
4) I am not daisy chaining. I'm trying to record a classical guitar with the most stripped down setup imaginable, namely, my mic plugged into the apogee. No mixer, no external preamp, no nothing.
But as I said, the noise occurs whether I have a mic plugged in or not, it occurs whether the breakout is connected or not, and it occurs whether I am plugged into AC power or not, and NONE of my other interfaces make anywhere near the noise of this Apogee Duet (in fact, they all seem pretty much silent to me).