Most people don't even understand what a filesystem is, nevermind whether it's open or not. I agree with you that data is moving online but that's orthogonal to the native vs web app question.
Current trends indicate user attention is shifting even more to native, BTW: http://blog.flurry.com/bid/80241/Mobile-App-Usage-Further-Do...
The web vs native debate is really just a debate about which technology is better suited to building cloud client apps. HTML5 + JS is just another UI stack like Cocoa Touch or Android.
You are correct that data is moving into the cloud, and away from Apple's restricted file system (or any local file system). But that has nothing to do with native vs. web (HTML) apps. Native apps can easily store all their data in the cloud (ANY cloud, not just iCloud), and still be native apps in the usual sense of the word.
It seems to me that the trend is toward native, cloud based apps. And these two concepts are not in conflict. As cageface says, they are orthogonal.
I don't know you from a bar of soap but reading your comments, I get the impression of an American late-teen with a solid amount of technical knowledge, strong opinions but staggeringly little perspective.
Even amongst those who are capable of administering an 'open platform cloud infrastructure' there are few who have the time. In my own circumstances, ten years of programming experience, recently shifted from consultancy to an analysis role at a major financial institution, start up on the side, seven week old baby,ten year old daughter, wife, 33 years of age... Let me tell you: the more my technology 'just works' the better. I won't accept my rights bing trampled on but a system that is elegant and robust albeit a bit restrictive is far preferable to spending hour on end tinkering with something that I need to actually use as opposed to configure endlessly.