Starting today, Amazon is roughly doubling the percentage of newspaper sales going back to the publisher. In return the papers are supposed to make a greater commitment to getting their feeds in on time and in avoidance of formatting errors. My limited experience with the Philadelphia Inquirer via Amazon has been good even though that paper actually has a checkered record when it comes to getting the physical print product out on time.
I just tried a couple papers (Washington Post, Canada's Globe and Mail, and Israel's Haaretz) with Calibre. I'm not sure about Haaretz, but the Washington Post and Globe and Mail seemed to be missing a fair amount of the paper. And the order of the stories was a bit bizarre and lot different from web placement (no, the top story in Israel today is not a cell phone outage). However, the formatting Calibre did was excellent. Despite liking the absolute up-to-dateness you get from the browser, I will be using Calibre more than I have.
Bottom line is that there are a number of decent options.
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