A particular Nep-Enut in the Super Mario World 2: Yoshi's Island level What's Gusty Taste Like? lives in a secret underground area, and is located entirely underneath terrain and Semisolid Platforms, making it untouchable when it is not in its risen form. The Player's Guide specifies this one as a Submarine Nep-Enut,[7] though the actual behavior between the two is the same.
In Yoshi's New Island, three Nep-Enuts appear in Rise of the Nasty Nep-Enuts, two in the first area and the third in the last area. They chase after Yoshi. They take three eggs to cause them to temporarily retract into the water rather than one.
In Yoshi's Woolly World and Poochy & Yoshi's Woolly World, Nep-Enuts appear only in the course, Frozen Solid and Chilled. By tossing three yarn balls into them, Yoshi is able to stun the Nep-Enuts for a few moments. They spit out Shy Guys at Yoshi. Nep-Enuts can be instantly frozen with an ice watermelon. They can be climbed on during their frozen state, but release themselves from the ice after a short while. However, Nep-Enuts can be defeated permanently if Yoshi pounds them while they are frozen.
In Yoshi's Crafted World, Nep-Enuts appear only in the level Pirate Pier. If hit with an egg, they will briefly retreat below the water.