How are you accessing the assets/pdfs within Logseq? Is it via the open in zotero link? So essentially you have in Logseq pages just metadata for the titles? Or I got that wrong?
How are you generating your bibliography citation pages? Will you do that in Zotero or Obsidian Citation Plugin?
I’m not in academia, but over the years I have amassed assets/pdfs related to public transportation totalling 5GB in about 1500 files. Early on I tried managing them in Mendeley but that turned sour when Elsevier took over them. So now I’m just managing those files/pdfs via keywords in their filenames and freeform metadata per file in descript.ion files.
I look forward to see how more experienced academics do it in Logseq for me to follow suit. 