We love them. We're atheists. Yes, there is often mention of "god loves us." Some of them are biblical in nature, and the end of episodes often end with a bible quote relating to the story.
Since changing ownership (so to speak) they have become less biblical stories and more stories with a morality theme. They still reflect biblical or christian values though. Moe and the Big Exit is loosely based on Moses leading his people out of Egypt. Little Joe is loosely based on the story of Joseph. Both are set in Dodge Ball City. There is a new one based on The Wizard of Oz with the subtitle The Prodigal Son. There was one based on LOTR called Lord of the Bean about finding your gift.
They're great fun and can be laugh out loud funny at times. If the movie comes to our town, we'll probably go.
http://bigidea.com/
ETA- I don't think the pirate movie will be biblical but rather moral.