That is very true. Small deviations in flatness won't hurt anything as long as they are consistent stone to stone through your progression.
I understand the YMMV thing with lapping stones, but I've never had an issue with stones off of SiC that aren't "super flat". Even Arks. I use a tile from home depot, remove most of the material with SiC, and then lay a sheet of 1000 WD on that same tile and give it a go for a minute or 2 with soapy water. I've never noticed an effect on the edge by not having it down to the tenth of a millimeter in true flatness. I can't believe it would make any quantifiable difference when honing, unless you're hitting the exact same low or high spot on the exact same spot on the razors edge every stroke.