my methods have been:

use trilium for any detailed notes and documentation

memos for random thoughts especially if shorter

pen and paper when offline or on mobile because mobile trilium and moememos both suck

zotero for citation and bibliography manager

backed up to nextcloud

i have paperless-ngx but found it randomly errors a ton of things and zotero is fine.

considering if it’s worth it to have so many different spread out methods

theyre fun to use but it creates more chaos then needed