I wonder if that Auto Merge in the Spin tool actually does merge the seam och vertices along the pin - but - what it does not merge is the top and bottom center vertices. Those are all multiplied with the number of steps in the spin, and placed in the same location. So, by having 16 steps around the spin, it results in 16 center points at top and 16 center points at bottom. Merging by Distance (precviously “remove doubles”) will then remove the duplicates at top and bottom, which results in 30 ( (16-1) x 2) vertices being removed.
Does that sound reasonable?