Thank you for clarifying. I’m quite new to WordPress, though not new to webdevelopment.
From a user / integrator perspective: implementing a WYSIWYG field should always show the same behaviour. Creating a paragraph in the WYSIWYG editor should create a paragraph.
My advice would be to not forcefully regenerate, but to add a line of documentation to the sample template, or create a setting which can be toggled.
Sorry, my wrong:
WP 3.3.1, CCTM 0.9.5.5-pl, I have tested several scenarios in this installation as described in my former message. I will file a bug then.