Actually, often it's the other way round, because most books are uploaded to Amazon as epubs and converted to azw3/KF8. Or worse is KFX. Amazon messes with images, formatting and fonts.
Somehow you've just been unlucky with the Kobo store version. I know people that upload the exact same epub for Amazon, Barnes & Noble, Apple, Kobo and Google's Playbooks. There is no reason not to, unless someone is trying to be too clever.
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