Preferences are settings that let you customize the display or functioning of some module elements, hotkeys, the Desktop, pen and tablet, and audio. You can save preferences to a file and retrieve them at a later time. Examples of preferences are the Auto Key setting in many modules and the Texture option in the Action Setup menu. Like setups, each type of preference is stored in a separate directory.

You set module preferences in the Setup menu of each module, hotkey preferences in the Hotkey Editor, and system-level preferences in the Preferences menu. System-level preferences (Desktop, pen and tablet, and audio) are saved for each user when you exit Flame, and are retained for future Flame sessions. You must save module preferences if you wish them to be available for future sessions.