Basically, I think you really mean this: "Are there CPU tower heatsinks that are BUNDLED with square fans as opposed to round ones?"
And looking closely at your observations of the Noctua documentation, I can add something to this question and answer. Round 140mm fans have mounting points and holes that match the holes for a 120mm fan. So if you felt easy about using a 120mm fan, I'm sure that you could do so. I also believe you could find a fan that pushes ample CFM with an acceptable noise level even if only a 120mm fan.
Personally, I never count on using the same fans bundled with a heatpipe cooler. My willingness to replace bundled fans may add to cost, but I always find a better fan than the bundle.