Same basic issue here. I used my work desktop to get started, so that’s the “master” (or the “let’s get started” sync). I come home, install Brave on my laptop (same OS, Win 7), enter the code words, ask it to sync, and my laptop goes and gets all my bookmarks, but blows the folder hierarchy to pieces. All subfolders, hundreds, spread across the Bookmark Toolbar; it took me a half hour to move everything back into place. When I did this on FireFox a few years back, then switched to Chrome because FF is awful now, both syncing functions worked flawlessly.
Passwords did not come over from Chrome, either, nor did they sync to my laptop. So now I will need to log into Chrome, go into settings, view passwords EVERY TIME I can’t remember one of a bazillion passwords I have (like everyone else). The ability for that synchronized profile to follow me was a huge help when working at home, and saved a lot of time (no more messing with bookmark.htm files!).
I’m excited about this browser, other than sync, and one other issue (different thread). Please fix this!