Season 3
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.
Episodes
1 BoBoiBoy vs. Ejo Jo Aug 11, 2013 
2 BoBoiBoy vs. Ejo Jo — Final Battle Aug 18, 2013 
3 In Memory of Probe Aug 25, 2013 
4 Operation Cocoa Sep 15, 2013 
5 Cocoa Jumbo's Rampage Sep 29, 2013 
6 Mr. Baga Ga's Service Oct 13, 2013 
7 Rob, Robert, and Roberto's Robbery Oct 27, 2013 8 The Five Sly Scammers! Dec 22, 2013 9 The Battle on the Moon Feb 16, 2014 10 Papa Zola & Mama Zila Apr 6, 2014 11 Mama Zila Attacks Apr 20, 2014 12 Adu Du's Mom May 4, 2014 13 Adu Du's Return To Evil May 18, 2014 14 PangoBot & The Onion Monster Oct 26, 2014 15 The Arsonist Nov 2, 2014 16 BoBoiBoy Fire Ignites! Nov 9, 2014 17 Danger: BoBoiBot Mar 1, 2015 18 Everybody Loves BoBoiBot Apr 5, 2015 19 BoBoiBoy's Water Surprise Sep 30, 2015 20 Rise Up! BoBoiBoy Water! Dec 24, 2015 21 Special Episode: Saving Planet Earth (Part 1) Dec 25, 2015 22 Special Episode: Saving Planet Earth (Part 2) Dec 26, 2015 23 Special Episode: Saving Planet Earth (Part 3) Dec 27, 2015 24 Enemies, Old and New May 28, 2016 25 Between Friend and Foe Jun 4, 2016 26 See You Next Time, BoBoiBoy Jun 11, 2016