Those figures don't surprise me. The room plays a part in the readings and my Audyssey readings with my KEF R300s recorded 40hz, now set at 80hz across the fronts. Based on those readings I would set the fronts to 80hz with both sets of surrounds at 100hz.Set to 120hz and LFE on the sub itself (highest setting)
As for Onkyo's calibration, yeah, no. I see why Audyssey is so popular.
I didn't use these settings as they were way off IMO.