Since I assume that the fancy organ in Verizon Hall can do pretty much anything you ask the organist to do, perhaps N.-S. shares my preference that the pedal notes be quite strong, but less so for the mid and upper notes. Not because I don't like organ, but because those registers are already thick enough with other stuff going on. That's just a preference. I do, however, share E.W.'s and Konsgaard's enthusiasm foe the Bertini M8 recording. Those who have known me for a long time, know that I was beating that drum decades ago. For me, the greatest ending of all is on the Markus Stenz M8 (also from Cologne). On the other hand, the recording I think captures the organ best throughout "Alles vergaengliche" is the Jonathan Nott one from Bamberg (and it's a very good, overall recording). All that said, I love how N.-S. handles the very final Eb chord of the entire symphony - the way he tapers in the organ, followed by the upper brass, followed by a crescendo on the bass drum roll. It truly keeps that final chord dynamic to the cut-off.
As for the intrusive noises on the recording, I'd rather they be there than have DG greatly process the sound further. These are the hazards of doing a live recording. They could have used more directional microphones, but those also make a recording sound more artificial. For the sake of recording purposes, I would have preferred that they had asked the audience to wait five seconds before applauding. But I prefer this to the Tilson-Thomas, where I'm quite sure they dubbed in a separate session for the very end, sans audience (it's so sterile sounding). Regardless, this one is good enough that I can jettison one or two other ones that have been hanging around in my collection, gathering dust.