I remember your "OSes are the future of consoles" thread and told you that you are setting yourself up for an "I was wrong all along..." thread. I stand by that.
I can't really argue on your comments. You have very valid points and those are clearly issues with Nintendo's current crop of platforms.
However, I do think OS features well beyond games would add a lot of value and desire for the general consumer. I think if marketed correctly, a Nintendo WiiU that also was a fully fleshed out Android app supported device that could sync with your phone/tablet would be selling a lot better and that is all software, so its not a large hit on the total costs of the device. Thus, it wouldn't have largly affected anything else.
Of course the single biggest part of this is the perception of these game consoles (the point you touch on with Nintendo directly) and the challenge is if the company correctly advertises and promotes all these expanded features beyond just gaming. MS of course can do this easier as they are already perceived as a PC company where as Nintendo is really only ever thought of as a games company.