Sure people are not using it now, in a year or two from now the technology may be better than the Flex/Air paradigm and then we'll have stories about people leaving Flex for silverlight.
As for your other point: "Developing windows only apps is no longer viable" -- I disagree, there is still a huge market for windows only apps, hell the tools to build flex/flash/air really only work on windows.
Again, I don't think Windows is dead or going away I'm simply saying it doesn't make sense to develop an app that's only for Windows anymore.
I mean, ask yourself this. If Silverlight can run in it's own Window (which will be possible as of V3) than why would anyone making a business app using WPF?
Take your pick.
(For the record, I don't think Microsoft will ever actually abandon it completely because they need to have something native. But for 95% of developers WPF just doesn't make sense anymore)
I am not really sure how great of an indicators book are. All of the "usual suspect" publishers either have books on the topic or are working on them.
As for books, the fact that there are already dramatically more Silverlight books out there and it came out after WPF I'd say that indicates something.
As far as books go, I'm not surprised that there are more Silverlight books than WPF. Web-centric technology books are in general more popular than desktop-centric books, particularly in the MS universe.
There's no story here. Both Silverlight and AIR are cross-platform. NYT chose AIR over Silverlight for purely technical reasons that all seem reasonable. Silverlight is not as far along as AIR at this point, simple as that.
The article mentions a bunch of anti-Microsoft comments on the NYT web site, suggesting that 'Microsoft-rejection' led to the migration to AIR. I find that very unlikely.
Namely, we're finally getting to the point where developing Windows only apps is no longer viable.
Even Microsoft essentially knows that now. Silverlight is basically WPF for the web. It's still has limits but MS is obviously trying to get Silverlight up to speed as quickly as possible while WPF (technology which only replaced Windows Forms in the last release) seems to have been all but abandon.