I've been on logseq for a while now and while I do genuinely recommend it, it is not without its issues. On recent versions I've faced issues where the page I'm typing on gets completely deleted. I end up having to go into Dropbox's web interface to restore that page. I'm fairly certain this issue is due to Dropbox and Logseq interacting with each other in a weird way, but regardless it has brought me a lot of headaches. Looking forward to them finally releasing their own syncing solution.
Other than that, the main issue I struggle with in these PKM/Zettelkasten style note taking apps is discoverability. I write down a lot of notes, but it is hard for me to find my way back to them. The benefit of hierarchy-based notetaking systems, where things get placed in folders and subfolders, is that at least I can get a big picture of my database at a glance. I've yet to find a nice way of doing this in logseq and its cousins.