The bookstore across the street from Café Diem is "Margaret Read" a nod to Margaret Meade, a famous American Anthropologist.
The scene with buildings lifting off into the air echoes a nearly identical scene that plays during the opening credits of the show. Even the music is identical.
Jo calls Deputy Andy "Mr. Data" a reference to Star Trek: The Next Generation, the show that Wil Wheaton the actor that plays Dr. Parish, is well known for.
Why is it always heights? Indiana Jones reference. "Why is it always snakes?"