Dunno if there's an easy way to make calibre check each ebook and swap the regular text for bold, and the bold text for regular. But if you are using your own sideloaded fonts you could just rename the files so that what was bold is regular and what was regular is bold
i.e.
fontname-regular becomes fontname-bold
fontname-bold becomes fontname-bold
That way it's easy to reverse should you find a better font. Though if you're reading on multiple devices this is less than ideal unless they are all Kobo devices.
ETA- GERGE beat me to it.
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