I have no explanation beyond your "wood is organic" but I feel your pain. Some years ago I built a corner hutch from kiln dried Red Oak, acclimated in a wood heated shop space, no less. I put tempered glass shelves in the top of the hutch - loose enough, mind you, that I could fit them into the pentagon shape of the corner easily. Midwinter a year later, and they were so tight in their space that I could not move them. I figure my kiln dried oak had to shrink a minimum of 1/8" over a 16" side to accomplish that. That's equivalent to what you'd expect from a 3% net moisture loss.
That's when I bought my first moisture meter.