It's kind of funny as a web developer because for the longest time Apple seemed to be the one pushing the mobile web forward but now that web apps are reaching for feature parity with native, Apple's initial momentum seems to be ancient history.
It seems Apple still thinks of the mobile web as a content delivery platform rather than an application platform. Their proprietary additions (mostly CSS) largely focused on making things prettier, their rationale for opting out of standard features (e.g. autoplay) often only work under the assumption that the only use for those features would be in the context of traditional content pages.
You want an app? Develop for our walled garden we tightly control to offer our users the best possible experience. If you want it on the web, stick to creating content our users can consume in Mobile Safari, our app for reading websites.
My thing is: I visit a particular website to get the latest news on a topic but it's done with some kind of poorly coded implementation of offline cache. Despite my privileged, first-world, 4G-everywhere connection, it insists on loading stale data even though it looks exactly like a regular website. And this clashes with my vision of internet, which is, as others said, regular pages with hyperlinks, and a Refresh refreshes the page to get the newest version, even if it's stale. If things haven't changed, then they haven't and I instantly know nothing's new.
As I've said, pretty minor and I realize that Offline mode has much more pros than cons.