The Note taking system is a cut down version of Nebo and has no integration with PDFs (or epubs). My Write Nebo on iOS and Android can import/export PDFs and even convert handwriting on them to text.
There are various export options for Nebo Notebooks on Elipsa and Sage. I've found the Sage better, but now only read and text annotate epub and use Nebo on the Nxtpaper 11 which gives real time preview of conversion.
I've used the reMarkable and it's more like a sketch app than notes. Inferior to Nebo and also the reMarkable only uses USB networking, folders (no meta data) and PDFs. I think they might have added Nebo text to reMarkable in a firmware update. It used to have no local text conversion.
So, no you can't integrate.
The My Write Nebo basic and advanced notetaking seriously limited by the slow eink. Just look at features and speed of Android or iOS. Also Google's offline handwriting recognition can be added (install Gboard and configure handwriting inc privacy) even to Android 8 and works well on an ancient phone much older than my eink Mars with Android. It's unusable on eink Android.
Using touch keyboard in epubs is better than pen as you can export real text.
The stylus is the same as any MS surface 3 or later type, though the optional BT/Onenote versions not needed. I've used the Kobo original pen and 2 models of 3rd party pen sold for MS Surface 3 or later (1 & 2 used Wacom). They were all identical on Elipsa and Sage.
Now I never use pen or Elipsa. Just Sage for epubs (and some smaller PDF manuals) and highlight/annotate with touch / onscreen keyboard.
USB is best for export to PC (Mac, Linux, Android, Chromebook etc).
I used KOReader for PDFs till Kobo added margin crop/zoom. It's only useful for badly formatted content as the native epub works with Calibre metadata such as Author, Title, Subtitle, Collection and Series. KoReader has a clunky way of doing a search on a Calibre metadata file, but otherwise is in the 1960s to 1980s for use as it has no library browsing / system, just file browsing, so painful with thousands of ebooks. A 32 G Flash ereader can store about 18,000 ebooks.
I use the Nxtpaper 11 tablet for PDFs, images, datasheets, colour, notes etc and it can probably use a 1T card, mine is 4G RAM, 128G Flash, 256G SD card and is as good as eink with a frontlight on. The eink only superior for novels and ambient light with frontlight off.
Calibre is the best solution to manage ebooks and PDFs. The Google Drive should only be used to collaborate or shard PD with friends. Otherwise it's useless.
I backup my Calibre when it's closed and can then update a different computer from that. Never use live Calibre on a Share or with Google Drive.
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