The best replacement for yojimbo is evernote.

The best alternatives to yojimbo are rated as following:
★★★★★  evernote
★★★  devonthink
★★  sanjuro
★★  fistful of dollars
★★  together
★★  zatoichi
★  voodoopad
★  dark valefor
★  bento
★  seven samurai
★  eaglefiler
★  journler
★  devonthink pro
  shovebox
  soho notes
  circus ponies notebook

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