|Secondary Story Arc Episodes|
|Llama Incident Arc||The Undergrounders • Rooting for the Enemy • Murphy's Lard • We're Going to the Zoo • Battle of the Bands • The Llama Incident • Missing Milo|
|Milo and Amanda Arc||Smooth Opera-tor • School Dance • Cake 'Splosion! • Managing Murphy's Law • Spy Little Sister! • Ride Along Little Doggie|
|Mr. Drako Arc||Athledecamathalon • We're Going to the Zoo • School Dance • The Math Book • Some Like it Yacht • Backward to School Night • Milo Murphy's Halloween Scream-A-Torium! • Picture Day|
|Just Getting Started Arc||Secrets and Pies • School Dance • Battle of the Bands • Disaster of My Dreams • Managing Murphy's Law|
|Lost Dakotas Arc||Backward to School Night • Love Toboggan • The Island of Lost Dakotas • The Phineas and Ferb Effect • Snow Way Out|
|Episodes in Italics indicate an episode that doesn't center around the subject of an arc but is still related to it.|
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