One of the few episodes to focus on Beaker is "Who's Afraid of the Big, Bad Dark?", in which Beaker, after watching a scary movie, is afraid of the dark, and the other babies try to get him out of his fear.
- Episode 102: Who's Afraid of the Big, Bad Dark?
- Episode 105: Scooter's Hidden Talent (appeared near the end)
- Episode 106: The Case of the Missing Chicken (fantasy sequence only)
- Episode 107: Eight Take-Away One Equals Panic (appeared very briefly on a plane in a Go Bye-Bye segment)
- Episode 109: Close Encounters of the Frog Kind (fantasy sequence only)
- Episode 113: Good Clean Fun
- Episode 201: Once Upon an Egg Timer
- Episode 206: Snow White and the Seven Muppets
- Episode 207: I Want My Muppet TV!
- Episode 208: Musical Muppets
- Episode 211: The Muppet Museum of Art (non-speaking appearance in fantasy sequence)
- Episode 212: By the Book (fantasy sequence only)
- Episode 301: Pigerella (fantasy sequence only)
- Episode 305: The Muppet Broadcasting Company
- Episode 308: The Daily Muppet (appears in a picture on the back of Gonzo's newspaper in a Go Bye-Bye segment)
- Episode 309: Scooter's Uncommon Cold (appears in one of Gonzo's photos)
- Episode 401: Muppetland (appears very briefly in music sequence)
- Episode 404: Where No Muppet Has Gone Before
- Episode 414: Old MacKermit Had a Farm
- Episode 507: Scooter By Any Other Name (cameo in music sequence)
- Episode 712: Remote Control Cornballs