As you've seen when you add an html file to a calibre library the software will create a zip that includes the html and the files it references, such as images. I suggest you convert the ZIP to ePub and view the ePub. Or in the Preferences->Behaviour->User Viewer for list, check the entry for ZIP, that does a conversion to ePub on the fly.
Also take a look at GrabMyBooks and dotEPUB, they can produce ebook formats directly from the web page. I think I've see posts at MR describing how to add the ePubs directly into a calibre library.
FWIW - I use Evernote for the sort of thing your doing, occasionally I export a web clipping from Evernote to HTML which I import into calibre and convert to ePUB.
BR
Last edited by BetterRed; 09-11-2016 at 05:37 PM.
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