The Turtles were flying above the city in the turtle copter scanning all the areas for a sign of Baxter Stockman. They could see the city was in much disarray below them.
"Man, look what he did to the place!" exclaimed Raphael.
"So where are we going to find this fly dude?"asked Michelangelo
"Well, think if you were a fly where would you want to go?" asked Leonardo.
"Hmm... Maybe like a garbage truck?" suggested Michelangelo
"Bingo!" exclaimed Leonardo.
They flew on until they found an enormous garbage truck parked near to Central Park. They also heard a loud buzzing noise and lowering themselves slightly they saw that it was none other than Baxter Stockman himself as he flew towards the garbage truck with all his arms outreached.
"There he is!" exclaimed Leonardo.
"It looks like he's gonna dump the truck!" exclaimed Raphael in horror. "Quick! The net!"
So the Turtles hovered directly over the garbage truck and unleashed a giant sized trapping net out of the wheels of the turtle copter and dropped it down onto Baxter Stockman just as he was about to contaminate the city.
Baxter began struggling in the net and buzzing almost as loudly as a chainsaw. He looked up and recognized the turtles in the turtle copter as they lifted him up as they were carrying him away. He was furious to be caught like this by his own enemies.
"How dare you, you amphibious double-crossing fiends!" he buzzed loudly as he shook all four of his fists at them. "I'll get you for this!"
"Calm down, fly boy," said Michelangelo "We're just taking you home with us so we can turn you back into a human."
"Don't you dare try tricking me like that!" yelled Baxter now angrier than ever.
"We aren't trying to trick you, Baxter," Leonardo assured him. "We really do want to help you."
"How can you want to help me? You're my enemies just as I am yours!" Baxter shouted with his red eyes blazing even redder.
"That may have been true in the past," said Leonardo. "But we'll be willing to forgive you if you'll only let us help you."
Baxter tried to think of another retort to get them with but found he couldn't. For somehow he could tell they were being sincere and he did want to be human again so much that he was willing to take whatever chance he could get.
Once they were back at their lair, the Turtles carried Baxter down to the sewer with his wings tied together to prevent his flying away. Then once they were in their quarters they brought him into Donatello's laboratory where the scientific-minded ninja turtle was just putting the finishing touches on his latest device.
"What are you going to do to me?" asked Baxter with a hint of fear in his voice.
"We told you," said Leonardo. "We are going to turn you into a human again. That's what you've been wanting isn't it?"
"Yes. But once again this had better not be one of your tricks," Baxter buzzed angrily.
"Baxter, we have never tricked you before," said Donatello. "We only ever fought you before because you started fighting us first, you and the Shredder."
Baxter felt his blood boil again at the mention of Shredder. "Shredder! He shall pay for everything he ever did and tried to do to me!"
"And we would like him to, too," agreed Leonardo. "And if we succeed in turning you back into a human we would like for you to join us in defeating the Shredder and all of his henchmen."
Baxter felt that the day he agreed to join a bunch of ninja-skilled turtle teens would be the day when he stopped being a scientist but then he wasn't sure he was one anymore for his new insect brain had been completely run with thoughts of a fly like eating sugar and spreading garbage everywhere, not to mention revenge on those who'd harmed him.
"What do you mean 'if' you succeed?" he asked unnerved.
"Well, we haven't ever tested this out," admitted Donatello. "But I'm sure I got the right calculations to eliminate your fly cells completely."
"You can trust Donatello," said Leonardo reassuringly. "He's the brains of our team and has never failed us before."
Baxter didn't like the idea of putting the trust of science in the hands of a mutant turtle but he nevertheless allowed himself to be strapped down onto the board and hooked up to all sorts of gadgetry some of which he was unfamiliar with which made him all the more nervous.
Well, he decided, if I don't survive this at least I'll be out of my misery.
Then all of the turtles put on protective masks over their eyes and Donatello began pressing a series of buttons on a controlling board and turning on switches that were connected to many of the gadgets that were plugged or hooked into Baxter.
"I don't think this will hurt... too much," said Donatello critically just before he pulled the last of the switches.
Then all at once Baxter felt a peculiar surge of electric shocks coursing all through his body which was followed by a blast of searing pain like nothing he had felt since he had been cross mutated with that fly so long ago. He remembered the shock of his insides becoming mutated along with his outsides and how his lab coat had been shredded under the growth of his giant fly wings and his extra pair of arms protruding out of his sides and his eyes bulging far beyond their capacity and his teeth seeming to be sucked way up into his gums. And now he seemed to experiencing that all over again except it seemed to happening in reverse and more slowly. He felt his wings shrinking, his second set of arms being pulled inward, his eyes being sucked inward, and his teeth pushing themselves downward. The worst sensation of all he felt was in his brain as his whole life seemed to be flashing through his mind's eye.
When at last the electric shocks stopped and the pain began to subside somewhat he opened his eyes and found his vision to be very blurry. Then as his vision began to clear he saw the Turtles standing around him with pleasant smiles on their faces.
"It worked," said Donatello softly.
"It sure did, Donny, it sure did," said Leonardo as he grasped his brother's hand.
Baxter wondered if he was hearing them right. It worked? Did that mean what he thought it meant? He no longer could hear himself buzzing, that was true. He looked down and to his astonishment he found his extra pair of fly arms were gone leaving behind two large holes in the sides of his vest and his regular hands had become human once again. He sat up slowly and glanced behind him and found his wings had vanished with only two large holes in the back of his vest to show they used to be there. He reached up to touch his face and he felt all of the regular features of a human face of eyes, nose, and mouth. He also felt his long wavy blonde hair which was quite dirty and messy now but was nevertheless back to how it used to be.
It was true, he was indeed human again.
What was more was he felt all the anger and desire for vengeance had also been vanquished. He now looked at the Turtles his heroes and saviors.
"Oh! You wonderful, brilliant, kindhearted turtles!" he exclaimed overwhelmed with emotion. "You have restored me to my true self! I don't know how I'll ever thank you enough! But why would you do this for me after I was such an awful nuisance to all of you?"
"Well, you see," said Leonardo. "We saw you were but only another one of the evil Shredder's victims and as our wise sensei is always telling us to look beyond appearances and to try see the good in everyone and to be forgiving of those who have good in them we just thought giving you back your humanity was the right thing to do."
Tears ran down Baxter's pale face. They were as much tears of joy as they were of regret. "Oh dear me! All those years I wasted trying to get revenge on you when all along I could have just turned to you for help! I don't know how I'll ever forgive myself."
"Well, you should, you know," said Michelangelo "After all the fly is gone and you're you again. And it must have been having the mindset of a fly that made you be so hateful and violent."
"But I was such a fool for joining the Shredder's side in the first place!" sobbed Baxter.
"And why did you join him anyway?" asked Leonardo. "We never knew."
Baxter wiped his eyes. "I had just invented a sure way to get rid of all rats but no one was interested in patenting my invention except the Shredder and I did not know at the time that he was up to no good so I agreed to everything he told me to do. And then when I was taken into that asylum and Shredder came and got me out I was so afraid to not do as he wanted of me that I tried to make myself just as evil and up to no good as he was."
"And you sure did a good job of it," muttered Raphael.
"Now I know I was wrong and I'm so ashamed of myself!" Baxter wailed putting his face in his hands. "I have disgraced the very name of science that I strived to live for! I am a failure of everything I ever tried to do!"
"That may have been true in the past," said Donatello gently. "But you can redeem yourself but working to improve what you do in the future."
"But how can I?" asked Baxter sniffling.
"You can help us get rid of the Shredder and thus put an end to his evil deeds," said Leonardo brightly.
"That would be nice if I could help you achieve that, I suppose," said Baxter. "But I wouldn't know where to start."
"Well, I can help you," said Donatello. "You wouldn't have become a scientist if you didn't have a bit of genius in you and if we put our heads together, you and I, we can come up with brilliant ideas for the forces of good."
Baxter smiled tremblingly. "I'd like that," he said. "And there is also someone else whom I'd like to reconcile my past with and hopefully start working with again."
"And who is that?" asked Donatello.
"My brother, Barney," replied Baxter.