If you're looking for a non-New York hot dog, definitely check out the Chilean hot dogs at San Antonio Bakery #2, on Astoria Blvd (South Side of the highway) at 37th St. They're all-beef, with a grilled bun, tomato, onions, guacamole, mayo, and chili sauce on the side. Definitely worth a trip, cheap, and their other stuff is tasty too.
Oh, and the last time I was in there, the owner said that they were planning on adding pizzas and delivery to their lineup...! Chilean hot dogs, delivered to your door! Can't beat that...
You need to check out Water Taxi Beach in LIC. Just south of Gantry Park and across from the Waterfront Crab House. For hot dogs they have:
Black Angus Beef Dogs $3 (Stahl-Meyer, deep fried)
Soy dog, $3.50 (Various, BBQ'd)
Chili Cheese Dog $4.50 (Black Angus Dog, Coney Sauce, Am Chz)
Marinated Beef Hot Dog $4 (Griddled, tastes sweet & spicy)
They also have 300 tons of New Jersey sand, a Tiki Bar, volleyball and music. How can you go wrong??