I am not going to lie. My first reaction was much the same as Michael Slade's but for different reasons. I don't care in what mode someone shoots or with what gear, however I tire of the need people have to attempt to make claims to which system is better without the use of any real quantitative measures.
For a true comparison you need bodies which are comparable and lenses which are very close in quality. The author fails to understand that even the so called "upgrade" of his own 50mm prime lenses is widely debated to which lens is actually the best. Chromatic aboration, bokeh, and lens flares vary between the three Canon 50mm lenses and there is no clear cut winner as to which lens is the best.
Comparing the lenses which he currently uses with the lenses he borrowed is not necessarily a fair comparison either. There are 3 Nikkor 35mm lenses, 4 Nikkor 50mm lenses, and 3 Nikkor 85mm lenses. He clarifies that he used the Nikkor 35mm 1.4 but which of the other ones did he borrow?
He mentions the cameras ability or inability to focus in low light, focus quickly, focus accurately, and create the bokeh effect. The greatest influence of these results is the lenses not the camera. Besides the lenses in camera settings including sharpness, contrast, and saturation will affect the returned images as well. What settings does he usually shoot on and what settings was the Nikon set on? Even the base settings will be different between the two camera manufacturers.
So my impression is that while he may be a good photographer, he offers no information which actually compares the cameras or lenses in any scientific manner. It is an opinion piece and not one that has any real bearing on the actual advantages or differences of the cameras because he doesn't even understand the influence of lenses or in camera settings.