Preferences
Preferences are about you rather than a project, and apply to every project. A project’s own settings are in Project Settings, which the Preferences sidebar links to when a project is open. How settings work explains the difference.
Open Preferences with
General
Section titled “General”The pane starts with a Global Preferences note, as a reminder that these apply to every project.

IDE command: the command that opens your code editor for “Open in IDE”, like code or cursor, or its full path, like /usr/local/bin/nvim. See IDE Integration.
Theme: Light, Dark or System, which follows your Mac’s appearance.
New file type: whether new files are Markdown (.md) or MDX (.mdx). A collection can set its own in Project Settings.
Appearance
Section titled “Appearance”Heading colour in light mode and Heading colour in dark mode: the colour of Markdown headings in the editor, each with a Reset button.
Editor font size: the size of text in the editor, in pixels (default 18). The rest of the editor’s typography scales from it.
Editor
Section titled “Editor”Auto-save delay: how long after you stop typing the file is saved: 1, 2, 5 or 10 seconds (default 2). See Auto-save.
Advanced
Section titled “Advanced”For troubleshooting: the version numbers, the folder your preferences are stored in, and Reset All Preferences. See Advanced Preferences.