Changes to QuarkXPress preferences are handled in the following ways:

• If you make changes to application preferences in the Preferences dialog box (QuarkXPress/Edit menu) with or without projects open, the changes are saved in the preferences files and immediately affect all open projects and all subsequently opened projects.
• If you make changes to XTensions Manager settings (Utilities menu) with or without projects open, the changes are saved in the preferences files and affect all projects after you relaunch QuarkXPress.
• If you make changes to PPD Manager settings (Utilities menu) with or without projects open, the changes are saved in the preferences files and immediately affect all open projects and all subsequently opened projects.
• If you make changes to layout preferences in the Preferences dialog box (QuarkXPress/Edit menu) with a project open, the changes are saved only with the active project.
• If you choose a different auxiliary dictionary with a project open, the change is saved only with the active project.
• If you make changes to the kerning table information, tracking table information, and hyphenation exceptions in a new project, these changes are saved with the active project and in the preferences files.

If the Nonmatching Preferences alert displays when you open a project and you click Use XPress Preferences, changes you make to the kerning table information, tracking table information, and hyphenation exceptions will be stored both in that project and in the preferences files.