My workflow for academic writing on the iPad
Search, archive, annotate pdf papers with Bookends https://apps.apple.com/us/app/bookends/id739087947 . I also tried Zotero in a webpage, and Paper Ship https://apps.apple.com/app/papership/id631980748 to manage my Zotero collection, but I prefer Bookends because it includes also search and pdf download (and it can do nice tricks with its programmable Ezproxy command which uses DOI as a parameter) and can easily output temporary citations in Pandoc format.
Write in markdown with IA writer (but any markdown editor should do). Insert temporary citations from Bookends in Pandoc citation format.
To generate bibliography on iPad, I’ve discovered I can use Pandoc. How? Enter UTM https://getutm.app, an emulator that can be sideloaded in various ways (I use appdb pro). In UTM I have a Debian filesystem with graphics and a shared folder with the iPad filesystem; I installed pandoc and pandoc-citeproc.
In order to finalize the bibliography section, I copy to the shared directory my IA writer manuscript (markdown), the references collection exported from Bookends in BibTxt format (needs a .bib extension) and the appropriate csl journal style file from zotero.org/styles. This is enough to generate a docx file from the manuscript with bibliography added. Also pdf can be obtained but I didn’t try yet. Find the appropriate Pandoc command in https://www.simonlindgren.com/notes/2019/11/15/setup-for-writing-in-markdown-citing-with-zotero-and-publishing-with-pandoc .
And that’s it.