If I were you I would phone Coda.
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I agree with Lak that you should call Coda.
It could be several things, perhaps the preamp section of the csib is passive, and you were using an active Musical Fidelity preamp. Or it could be a difference in input voltages required for full output of the amp, or it could be defective.
I would not expect the volume to "break in" though. Call Coda, you may get to talk with Doug Dale, one of the founding engineers. They are great people to work with.
The A3.2 volume control is either a potentiometer or of that nature. The CSiB volume control uses a digitally controlled attenuator. They are two different devices. Most probably your experience with the CSiB is working as designed. A few years back I went from a Musical Fidelity A308 integrated to a Simaudio i7 which has a volume control similar to your CSiB. I experienced the exact situation as you, and at first was a bit concerned. When I understood the difference in the nature of the two volume controls, I was at ease and enjoyed the i7. It, like your CSiB, would go a ways into the volume range before I heard what I considered a lower listening volume.
Call Coda to be sure, but this may be the way it is by design. The CSib is a fine amp made by a top notch company.