Alright, so after having picked up all of the Magical Shopping Arcade Abenobashi DVDs recently, I found the manga for it and decided it might be a worthy read. Now, they definitely changed things around for the Manga, and in one of the various worlds Sashii and Arumi visit (the dinosaur kingdom one), Godzilla is the final boss (unofficially)! He's nicknamed a "spinosaurus" as a joke, and Sashii even goes as far as to hint that the only weapon that can defeat this "spinosaurus" starts with an "o", then calls Eutus "Dr. Serizawa". Also, the weapon to destroy him needs to be summoned by "the little summoners" (mothra twins).
Crazy.