I'm sure I haven't tested my A7r as thoroughly as Mr. Hogan did his, and my experience with the D800e is limited to a week's rental with a couple of (high end) lenses (mostly the latest Nikon 85mm 1.4), and thus perhaps doesn't count, but I'm tempted to suggest that one reason why he finds it hard to describe the differences in image quality between the two is that the flaws he singles out in the A7r are either trivial or simply don't show up in most "normal" use (though I probably shouldn't use that term - for all I know, my use isn't "normal"). This is merely anecdotal and doesn't prove anything, but speaking just personally, after I returned the Nikon and looked at the images I took with it I sensed no camera/lens envy/remorse, but after trying both Sony A7s I promptly bought an A7r (it doesn't hurt that, as Hogan concedes, the two Sony FE primes are "stunningly good," but at the time I made my decision I had used nothing but adapted Canon lenses).
Aside from that, it seems a bit odd that he decided to evaluate the A7s in terms of whether they could be considered "the best all-around" camera, surpassing his beloved D800e (itself an odd choice for the title, as others have pointed out). The structure of his review suggests he's rather missing the point. I haven't read any of Sony's publicity stuff, but I wonder how many people genuinely interested in these cameras in the first place, or who know and like these cameras, would suggest that they are contenders for such a title in the first place? No-one would recommend them for very fast performance, let alone herons-catching-fish, for instance, and whether they would be a good recommendation to anyone at all as the only camera they need own would depend entirely on how they like to use their cameras; for a lot of people they would be a terrible choice. (I'm surprised that Mr. Hogan doesn't seem to acknowledge that some people prefer EVFs.)
As we all know, nothing's perfect, so you compromise. If you really care about noise, you get a 6D and forego the AF etc. advantages of a 5DIII; if you really care about herons-catching-fish you forego a degree of resolution; if you want maximum versatility in a small, light system, you buy into Micro 4/3 and accept the (decreasing) disadvantages of a smaller sensor. And so on. For my part, while the A7s aren't as versatile as any of the cameras I've mentioned, I greatly appreciate the ability to get images of such high quality and detail so easily out of body/lens combinations this small/light.