Periodicly I make a spreadsheet of all my passwords and organize them. I then store the file on a thumb drive which is very seldom actually attached to the computer(s). I print a hard copy of the list and keep it in my office.
Then I make sure I've cleaned my computer of any and all junk using Ccleaner to clean up any problems that have cropped up, then I defrag, then I wipe the drive so no fragments are left anywhere.
Call me paranoid, but I would not have my passwords on my computer even protected by some app that potentially could get hacked.