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1) Google drive shouldn't be used except for temporary use of backups and transfers. Ideally get your own hosting.
2) The main copy of Calibre library shouldn't be on the internet or google drive, drop box or one drive
3) Almost all ereaders can read nested directories (folders), but almost all need to use a browser and download a copy, not use a cloud drive directly.
Also ereaders only "add" books by download, if the on device browser works. The proper way to add books is to use the ereader as a perpheral device on a host. Nesting isn't an issue for the host or peripheral gadget except on a few prehistoric gadgets.
So there is no need to "flatten" the Calibre filestructure, though it's possible to select all or some ebooks in Calibre and "attach" storage location and using a template export all the books in one go with no nesting. This is a really bad idea.
So, yes what you want is a possible EXPORT of everything at once (calibre itself has to use what it uses and should be on a local drive), but it's madness and also no ereader needs it except maybe something totally ancient that won't read kindle or epub files anyway, only text, and that won't cope with very many files.
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