I don't think your argument is inconsistent with the argument you're countering. There is room for both emulation-enhancement of analogue instruments - a very useful function and one which the makers of this seaboard seem to be leaning towards - and the creation of brand new instruments through synth (and new interfac) technology. Indeed these two functions come closer together as we create new interface-noise style hybrids.

Additional points of interest which do not affect your actual argument, but which are good for clarification: the most responsive pipe organs use tracker action, which being mechanical allows much more control than the more "modern" but less responsive electropneumatic actions necessary for the very largest instruments. IT makes the action from pressing key to opening the pipe faster - much of the latency in the organ is often in the pneumatics - but of course cannot change the distance issues.

also Attack makes a huge difference to the sound on a well-voiced instrument, and this makes a huge difference. Subtleties in duration are of course also as vast on the Organ as they are with the piano and other instruments.