The Morea generator now allows you to create markdown files inside the morea/ directory with the extension .markdown.
These files are processed into HTML by Jekyll, but will not appear as a module, outcome, reading, experience, or assessment. This is useful for creating (for example) quizzes in markdown format that are kept with other module files. 
For more details, see the non-morea markdown section of the user guide.
To obtain this update, run the morea-merge-upstream.sh script.