When comparing Org-mode vs DEVONthink, the Slant community recommends Org-mode for most people. In the question“What are the best Evernote alternatives?” Org-mode is ranked 6th while DEVONthink is ranked 38th. The most important reason people chose Org-mode is:
Org-mode is characterized by a flexible and versatile system with adaptability to different workflows, making it comparable as an Evernote alternative. It is at once simple and complex., which helps it to compete as an Evernote alternative.
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Pros
Pro Very flexible
Org-mode is characterized by a flexible and versatile system with adaptability to different workflows, making it comparable as an Evernote alternative. It is at once simple and complex., which helps it to compete as an Evernote alternative.
Pro Built-in agenda
Org-mode has some built-in agenda functionality. You can schedule tasks and assign various degrees of importance to each of them. Org-mode agenda can also be synced with Google Calendar.
Pro Versioning can be tracked and synced using Git or other VCS
Org files are plain text, and lend themselves well to version control. Emacs also has good integrations for various VCS.
Pro Great sync support
Notes and to-dos can be synced with Trello, Toodledo, Simplenote, Orgmobile, or with tools like Git on Github, Dropbox, Google Drive, and Bitbucket, while WebDAV (with iOS and Android) can also be exported to PDF, mind map, LaTeX, HTML, Docbook, or txt.
Pro Basic spreadsheet functionality
Org-mode has some basic spreadsheet functionality. Other than auto-formatting ASCII tables (a notoriously annoying problem), it also has support for LISP-like syntax to define equations or any other functionality that can be achieved through spreadsheets.
Pro Out-of-the-box Latex support
Org-mode has out-of-the-box support for Latex: it can immediately parse equations (or other Latex markup) and can even compile notes to PDF or HTML.
Pro Can store any file type
File types containing text are indexed.
Pro Very flexible
An extensive feature set makes it easy to adapt to your work flow.
Pro Completely offline
Pro Sync
Sync between different macs and/or ios devices is fast, safe and easy. You can sync via iCloud, Dropbox, WebDAV or WiFi.
Pro Full text search
Pro Webpage Clipper
A flexible web clipper can add contents of any web page to DevonThink.
Pro One-time purchase vs monthly subscription.
Pro Paperless office functions available in PRO Office version
Includes processing of scanned documents, OCR etc.
The OCR function is based on FineReader and is probably the best one on the market.
Cons
Con Difficult to learn
Org-mode has a difficult learning curve since you have to learn all the keybindings and commands. It's especially difficult if you are not used to Emacs.
Con Only runs on Macs, iPoneOS, iPadOS & Web
It does not run on Windows, Android, and Linux.
Con Stores in a proprietary format
It stores the whole database in a proprietary file package, that you cannot easily access from another app or from the Finder. Considering you might be classifying a huge quantity of files there, it is quite problematic if you want to interact with this data from other applications.
Con Very limited automation
While the marketing claims are about an intelligent document manager, it actually does not offer many automation features, such as automatic classification, tagging and renaming of the files. It's much more like an extended file explorer.
Con Costs US$79.95 for just the Personal version
One-time purchase instead of monthly subscription.