50's Prime Time Cafe used to have a great fried clam roll on their menu, but it was removed at some point last year. Perhaps if we all visit the restaurant, clap our hands and cry out, "I do believe in fried clams!" Mom will take pity on us and start cooking them again.
I know that there is a seafood shack type of place in the Amity (Jaws)section of Universal Studios that serves fried clams. I'm pretty sure they're clam strips, though, and not whole belly clams.