The third season consists of 26 episodes, originally airing from August 2013 to June 2016. In this season, BoBoiBoy defeats Ejo Jo, and Adu Du bin Abu Seman becomes BoBoiBoy’s friend but he turns evil back again because of his mother. Boboiboy also gets his new Fire and Water Elemental powers. This is the first season that new episodes would be uploaded onto YouTube before its first airing on TV. It is also the first season to change the theme song, switching out “BoBoiBoy Superhero Kita” (English: BoBoiBoy, Our Superhero!) with “Jagalah Bumi” by Kotak.
3 - 1BoBoiBoy vs. Ejo Jo Aug. 11, 2013- 3 - 2BoBoiBoy vs. Ejo Jo — Final Battle Aug. 18, 2013
- 3 - 3In Memory of Probe Aug. 25, 2013
- 3 - 4Operation Cocoa Sep. 15, 2013
- 3 - 5Cocoa Jumbo's Rampage Sep. 29, 2013
- 3 - 6Mr. Baga Ga's Service Oct. 13, 2013
- 3 - 7Rob, Robert, and Roberto's Robbery Oct. 27, 2013
- 3 - 8The Five Sly Scammers! Dec. 22, 2013
- 3 - 9The Battle on the Moon Feb. 16, 2014
- 3 - 10Papa Zola & Mama Zila Apr. 06, 2014
- 3 - 11Mama Zila Attacks Apr. 20, 2014
- 3 - 12Adu Du's Mom May. 04, 2014
- 3 - 13Adu Du's Return To Evil May. 18, 2014
- 3 - 14PangoBot & The Onion Monster Oct. 26, 2014
- 3 - 15The Arsonist Nov. 02, 2014
- 3 - 16BoBoiBoy Fire Ignites! Nov. 09, 2014
- 3 - 17Danger: BoBoiBot Mar. 01, 2015
- 3 - 18Everybody Loves BoBoiBot Apr. 05, 2015
- 3 - 19BoBoiBoy's Water Surprise Sep. 30, 2015
- 3 - 20Rise Up! BoBoiBoy Water! Dec. 24, 2015
- 3 - 21Special Episode: Saving Planet Earth (Part 1) Dec. 25, 2015
- 3 - 22Special Episode: Saving Planet Earth (Part 2) Dec. 26, 2015
- 3 - 23Special Episode: Saving Planet Earth (Part 3) Dec. 27, 2015
- 3 - 24Enemies, Old and New May. 28, 2016
- 3 - 25Between Friend and Foe Jun. 04, 2016
- 3 - 26See You Next Time, BoBoiBoy Jun. 11, 2016
