Wow.
Absolutely incredible, phenomenal game, man. I have to say, after grinding through the entirety of this beta in a day, this might be my new favorite rom hack of all time! The story was well-written and engaging, the characters were nicely fleshed out and interesting, and the mechanics were top notch. I've never been more excited for an update to come out!
I have very little to complain about, but I did encounter a glitch on Route 15. The first biker you encounter (when going towards Fuschia) caused my game to freeze and crash when my Pidgeot used Fly against one of his pokemon, and after defrosting I checked to see if it would happen again and it did. Other than that though, the game played flawlessly.
Some suggestions I have:
1) It's kind of a bummer that you can only turn in pokemon to the police. I have three boxes filled with extra mons I'm never going to use, but I also don't want the price on my head going down by turning them in. Perhaps you could include someone in the Rocket HQ that you can turn pokemon in to for items/tms (especially considering grunts usually steal pokemon for Team Rocket and not themselves anyways).
2) After the robbery in Viridian, you should be able to rob pokemarts as you please, especially since the shop in the game corner is so limited. Either that, or the Rocket's mart should update with new items each time you rank up.
3) I also think you should be able to rob the npcs that give Red tms and items (not necessarily key items like rods, but perhaps after becoming an executive you could have the power to take the smaller things at least).
The game is awesome without those inclusions, however, and I'm thoroughly impressed with your progress. I look forward to seeing where you take things from here!