for some reason my version goes really bad if i change system.yaml, markdown_extra to true. If i change it on a page basis, it works. Possible some sort of conflict in other pages maybe.
one other thing that took me ages to find:
YAML appears to insist on a space after the colon. Otherwise my version dies horribly making files that become "permission denied" even after a reboot. don't know why, but the space fixed it.