But you can cater for that "by" case yourself by modifying your regular expression in Preferences -> Adding books.
It is not worthy enough as a special case to try to build into calibre - imagine the confusion for users where you have a regular expression based approach for 99.9% of the books out there - but then when "by" happens to be somewhere in the title their regular expression gets discarded and other logic kicks in?
From years of downloading books from a wide range of sources I can say with confidence that a "Title by Author" file naming convention is by far in the minority - less than 0.1% of my collection at most. If it is a convention you have chosen for your books and is how you want to import them from, that is fine - just specify your regular expression to accommodate that. It is no different to people specifying a "Title - Author" or "Author - Title" or "xxx" convention.
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