[SOLVED] PHP Markdown Extra not working in Atahualpa posts

Wordpress 3.6, Atahualpa 3.7.12 Markdown Extra 1.2.7 (all the latest versions as of this post to the best of my knowledge)

<http://world.arsu.org>

For some reason, markdown is not getting called on multi-post pages (for example, if you were to check the Homework links in the right sidebar--school is just about to start so there aren't a lot of homework assignments yet--if you look, be sure to look at one that has more than one assignment)

Also, the wordpress <!--more--> tag does not seem to be working either.

I have just started using Atahualpa, but I have been a wordpress and markdown user for many years. The school district just migrated to google sites, but I refused and took the opportunity to try out atahualpa.

When I double check the posts themselves, they are perfectly formed markdown (they're quite simple, just some ULs and LIs).

I have also noticed that sometimes, even a single post doesn't format correctly.

Suggestions? Thanks.