Yoshi's stomach growls due to hunger in his Tournament ending in ''Mario Power Tennis", Just before Luigi was about to give him the trophy, But Yoshi mistakes the trophy for a pineapple and eats Luigi by accident.
It happens to O'Chunks at one point in Super Paper Mario. Happens to Squirps as well in the game.
In Mario & Luigi: Bowser's Inside Story, Bowser complains about his stomach gurgling, obviously due to indigestion, after being gorged with fatty food to the point where his weight caused him to break through the floor. Bowser himself blames a giant carrot he had eaten earlier in the game for his stomach problems.
In Kirby's Epic Yarn, Kirby's stomach grumbles during the storyline after he defeats the first boss.
Yuka's stomach growls in Corpse Party Blood Covered near the beginning of Chapter 5.
In Metal Gear Solid 3: Snake Eater , if the player's stamina meter becomes too depleted Snake's stomach begins to rumble, and continues rumbling until the player makes him eat something to refill the meter. (Enemies can track his location by the sound.)
Infamous example from The Legend of Zelda I: In one of the dungeons, you run into a non-hostile Goriya blocking a door. He's extremely hungry, and will get out of your way once you give him monster chow. The text that appears above him reads "Grumble... Grumble..." and there are no other hints, which caused no end of frustration for players who didn't realize at first that that wasn't dialogue, but rather the noise the monster's stomach was making.
It happens again in Pokémon Super Mystery Dungeon. It's referenced early on, as the partner character mistakes Gabite's voice for the player character's stomach. Later on, it happens during the first encounter with the Expedition Society, starting with Swirlix, with the majority of the other members' (Buizel, Bunnelby, Dedenne, and Archen) following suit in unison. It happens again after the battle with Entei (though it's unclear who's belly is the culprit), and again not long after to Ampharos. In the post-game, Mew's stomach growls following a mission.
In Animal Crossing New Leaf, this happens regularly to villagers with the Lazy personality type. A random conversation you can have with these kinds of villagers involves them showing off their "stomach clock", which somehow growls the current time of day. When visiting your house, sometimes their stomachs growl as an indication that they need to go back home. And in another random conversation, these villagers may ask you what your favorite kind of pie is. Your answer will cause them to talk about how good that type of pie is- which causes their stomach to growl.
This also occurs to villagers with the Jock personality type in another random conversation. Occasionally they will ask you to look into their eyes and tell them what you think is on their mind. Though the answer options you're given are randomly selected, one of the possible options you can select is "You're hungry". They deny it at first, but their stomach winds up growling right on cue.
And finally, the Smug villagers also have an instance of it. Occasionally when they ask you to fetch some fruit for them, their stomach will growl during the conversation. Unlike the Lazy and Jock villagers (who just have a typical "Growl" onomatopoeia in the text box), the Smug villagers' stomachs actually talk.
Seaman mentions this at random points in the game.
In the 2007 video game for the Nintedo DS called "Disney Friends", This happens when a Friend is Hungry.
In "The Walking Dead: Season Two - Episode 1", Clementine's stomach growls due to hunger.