At the end when Ernest Borgnine and the children are sitting around singing "Bingo", a presence attacks Ernest Borgnine. This is a reference to the Friday the 13th film series about the serial killer Jason Voorhees who lives at an abandoned camp called Crystal Lake.
Hans Moleman says "You call that knife? This is a knife!", to which he pulls out a Bowie knife. This makes a reference to Crocodile Dundee, in which the main character says the same quotes and also pulls out a Bowie knife. This is also referenced in Bart vs. Australia.
Doctor Hibbert operates on an appendix without anesthesia and sewing a wound.
"Dueling Banjos," the banjo melody which is heard during the jungle scene, as well as the rustlers whose silhouettes are seen sneaking through the bushes are references to the movie Deliverance.
Homer Simpson was singing "Sugar, Sugar" by the Archies while dancing with the candies until the music and himself slowed down and the candies melted. The song would later be heard in Sweets and Sour Marge.
When Homer smells the scent of Krusty Burger when stranded on the boat with Flanders, Rod, Todd and Bart, he pulls out a map with the locations of Krusty Burger around North America. He points to the south east coast of the country that displays an offshore oil rig. This could indicate roughly the area in which Springfield is located. Judging from opinions on the proposed location of Springfield it could very well be Michigan even though it is quite far from the Southern East Coast.
In the Wild Adventures in Paradise promo. Homer is seen dancing with the candies but this time. He's dancing with the candies and sexy ladies.
When Bart and Milhouse first go the Kwik-E-Mart for the Squishee, the two flavors are red and purple. When Apu goes to pour the Squishee, they are now both purple, and then when he's done, the two colors are purple and green.