In this kind of fanfiction, Ash might wake up with new Pokemon - like abilities. For example, he could communicate with Pokemon in a more direct and profound way, like understanding their every thought and emotion just by looking at them. He might also find himself physically changed, perhaps having some physical features of a Pokemon, which could lead to all sorts of interesting adventures and interactions with his friends and other Pokemon trainers.
He might meet Pikachu first. Since Pikachu is his closest and most loyal Pokemon friend, it would be likely that Pikachu would be by his side when he wakes up. Pikachu could be really confused at first but still show concern for Ash in his new state.
Perhaps he wakes up to find that the laboratory is in the middle of a big experiment gone wrong. There are strange creatures or phenomena around him, and he has to figure out how to escape and also stop whatever bad thing is about to happen. He might use his Pokémon knowledge and skills to get through this tough situation.
In the fanfiction, when Ash wakes up in the room, he might discover that he has new, unexpected powers. The room could be a sort of testing ground for him. He'll have to learn to control these powers while also dealing with the mysteries of the room, like hidden doors and cryptic messages on the walls.
Well, one possibility is that Ash wakes up with all the powers of Mew. He could then use these powers to quickly become the best Pokémon trainer ever. He might be able to communicate telepathically with all Pokémon, understand their needs and desires instantly, and use his newfound psychic abilities to battle more effectively. For example, he could levitate his Pokémon during battles, giving them an unexpected advantage.
For Ash, Pikachu is always a great choice as it's his most loyal and powerful partner. Alongside that, a strong flying type like Charizard could be useful. For Brock, his Onix would be a staple. And perhaps a water - type like Vaporeon could be good for him to balance his team. Since they are teaming up, having a psychic - type like Alakazam could also be beneficial as it can help in battles and also with communication in tricky situations.
At first, his friends might not believe it's Ash. But when he starts to show his usual personality traits, like his determination and kindness, they would start to accept it. They would then start to think about how they can use Ash's new form to their advantage. For example, they could use his ability to fly as Mew to reach places they couldn't before, or his psychic powers to sense danger from afar.
He might meet a mysterious old wizard. The wizard could be the one who brought Ash to the room, either for a purpose or by accident. The wizard could then guide Ash on a journey, or perhaps be an antagonist who has some dark plan for Ash.
Team Rocket is the most likely candidate. They've always been after Ash's Pikachu and tying him up would be a way to stop him from protecting his Pokémon. They could use ropes or some kind of Pokémon - powered restraining device.