A lot of the things mentioned there are good reasons for a curated App Store approach. It's almost impossible to stop arbitrary programs from abusing features of the OS on which they run, unless you have control over which ban poorly behaving programs from ever reaching end users.
Alternatively, you can think of it as a good argument for open source. Take abuse of the notification area, for example: in Ubuntu this was eliminated by modifying every package in the archive. That's something a system like Windows with closed components belonging to dozens of different manufactures can't really do.
