you should be able to find him back at his lab
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You need to get 100 pokemon then go and talk to professor Birch and he will upgrade your pokedex.
After beating the Elite Four, go to a Pokemon Center and Trade a Charizard from Fire Red. you can get a Typhlosion by collecting 200 types of Pokemon then going to prof. birch :)
Mudkip is a starter Pokemon on Pokemon Emerald, Sapphire and Ruby. This means that it is the first Pokemon you get. You get starter Pokemon near the beginning of the game from Professor Birch. Other starter Pokemon are Torchick and Treecko.
You get a diploma in each, in emerald you can get a johto starter from prof birch and that's it.
After defeating the Pokemon League, May lives in the house to the right of your house in Littleroot Town, but if you want to talk to her, you have to go to Prof. Birch's lab. Before you beat the Pokemon League, I think she's not at her house or Birch's lab yet, but I don't know for sure because I never checked.