So, I decided to rework this list with the new rules from the Best Female Protagonist video (Duel Score is now -1 point for each loss, not 0). This update gives Yusei and Yuya both a boost in duel score rankings, whilst dropping Yuma down a bit. The new duel scores are as follows:
1st. Jaden Yuki: 236 (Down 7 points from 243)
2nd. Yusei Fudo: 149 (Down 1 point from 150)
3rd. Yuya Sakaki: 126 (Down 4 points from 130)
4th. Yuma Tsukumo: 124 (Down 33 points from 157)
5th. Yugi Moto: 108 (Down 7 points from 115)
6th. Yusaku Fujiki: 78 (Down 3 points from 81)

This also changes the final rankings up.
The new final scores are:
1st. Jaden Yuki: 28 (No Change at all)
2nd. Yusei Fudo: 24 (An increase of 2 points; no change in rank.)
3rd. Yuya Sakaki: 16 (An increase of 2 points; now 3rd place instead of 4th.)
4th. Yuma Tsukumo: 14 (A decrease of 4 points; now 4th place instead of 3rd.)
5th: Yugi Muto: 9 (No change at all)
6th: Yusaku Fujiki: 8 (No change at all)

While the only real change was Yuma and Yuya swapping places in the final scores, it was still interesting (at least to me.) that the updated scoring system had an impact on the final scoring at all. I'll be doing the same thing with the rivals, next.

Yugi beat a guy who could read his mind, see his cards, and created the game

To be a Yugioh protag you need.
- Name that has Yu in it
- Hair that is more than 1 colour
- Monster with 2500 atk

Yugi didn’t have many duels because every duel was 10 episodes

"A duel isn't over until the last card is played."
~Jaden Yuki

I like when main characters lose a duel not gonna lie. For me it just makes them more interesting

I guess that chilling out with the crew in the schoolyard pays off

Jaden's number one? Well good thing he played all of that assassins creed.

Yugi's duels lasted so long they make the Frieza saga look like a shortfilm.

Just image how long the duels would have gone if they talked more.

Jaden be like:
"Thats why i have a PHD in dueling"

Jaden 100% everytime that kid gets in any kind of trouble:
"PoT oF GrEeD"

When you realize that the class clown got the highest grades...

Looking back at this, it would be interesting to weigh each Win/Loss based on the stakes involved. A match against the best duelists in a tournament isn't the same as losing against a childhood friend in a flashback.

to be fair, Yugi/Atem's lower duel count is cause his duels were longer than average

I think the reason why Yugi had such little duels is because of the plots for the different arcs, like he wasn't the only guy that had to take on the majority of the baddies, it was split between him, joey and seto.

“It’s not whether you win or lose it’s how you play the game” -Yugi Muto

Jaden has the best character progression. Season 4 of gx made him ruthless

Yugi had fewer duels because even his short duels took multiple episodes.
Plus, half his time is spent mentoring Joey

Jaden is a very seasoned duelist. I also love that he is the most human and relatable character.

He was super hyperactive and carefree, became serious and somewhat depressed do to unforeseen events, then grew up and started to find his balance of seriousness and love of the game. Just like an actual person irl.

So can we get a statistically best Yu-Gi-Oh anti-hero (i.e Kaiba, Zane, Jack, etc)