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Looking for filler episodes? View the filler guide.
| # | Title | Aired | Type |
|---|---|---|---|
| 1 | GTO-The Legend Begins | Jun 30, 1999 | Canon |
| 2 | Enter Uchiyamada! | Jul 7, 1999 | Canon |
| 3 | Late Night Roof Diving | Jul 21, 1999 | Canon |
| 4 | The Secret Life of Onizuka | Aug 11, 1999 | Canon |
| 5 | An Eye for an Eye, a Butt for a Butt | Aug 18, 1999 | Canon |
| 6 | Conspiracies All Around | Aug 25, 1999 | Canon |
| 7 | The Mother of all Crushes | Sep 1, 1999 | Canon |
| 8 | Bungee Jumping Made Easy | Sep 8, 1999 | Canon |
| 9 | Onizuka and the Art of War | Sep 22, 1999 | Canon |
| 10 | Outside Looking In | Sep 22, 1999 | Canon |
| 11 | To Be Idolized by a Nation | Oct 17, 1999 | Canon |
| 12 | The Formula for Treachery | Oct 31, 1999 | Canon |
| 13 | Only the Best Will Do | Nov 21, 1999 | Canon |
| 14 | Between a Rock and a Hard Place | Dec 5, 1999 | Canon |
| 15 | The Great Sacrifice | Dec 12, 1999 | Canon |
| 16 | Beauty + Brains = A Dangerous Mix | Dec 19, 1999 | Canon |
| 17 | Falling for The Great Onizuka | Jan 16, 2000 | Canon |
| 18 | How to Dine and Dash | Jan 23, 2000 | Canon |
| 19 | Private Investigations | Jan 30, 2000 | Canon |
| 20 | Love Letters | Feb 6, 2000 | Canon |
| 21 | Revolution Everywhere | Feb 13, 2000 | Canon |
| 22 | The Art of Demolition | Feb 20, 2000 | Canon |
| 23 | Superstition | Feb 27, 2000 | Filler |
| 24 | Compromising Positions | Mar 5, 2000 | Canon |
| 25 | Playing Doctor - GTO Style | Mar 12, 2000 | Filler |
| 26 | Onizuka Meets His Match | Mar 19, 2000 | Filler |
| 27 | GTO - Agent to the Stars | Apr 2, 2000 | Filler |
| 28 | Whatever Can Go Wrong, Will Go Wrong | Apr 16, 2000 | Filler |
| 29 | Studies in High Finance | Apr 23, 2000 | Canon |
| 30 | Money Talks, GTO Walks | Apr 30, 2000 | Canon |
| 31 | Destination: Okinawa | May 7, 2000 | Canon |
| 32 | The Law of Probability | May 14, 2000 | Canon |
| 33 | Search and Rescue | May 28, 2000 | Canon |
| 34 | Good Cop/Bad Cop | Jun 4, 2000 | Filler |
| 35 | Wedding Bell Blues | Jun 11, 2000 | Canon |
| 36 | Self-Improvement | Jun 18, 2000 | Canon |
| 37 | Living Together | Jul 16, 2000 | Canon |
| 38 | Great Treasure Okinawa | Jul 30, 2000 | Canon |
| 39 | Alone in the Dark | Aug 13, 2000 | Canon |
| 40 | Matters of the Heart | Aug 20, 2000 | Canon |
| 41 | Confessions | Aug 27, 2000 | Canon |
| 42 | Old Wounds Revisited | Sep 10, 2000 | Filler |
| 43 | Onizuka's Final Battle | Sep 17, 2000 | Canon |