If I were in a doubles battle, and me and my teammate both had 3 Pokemon, would the move Beat Up deal damage taken from all 6 Pokemon in our team, or just my 3?
Beat Up deals damage from each Pokémon on your team that does not have a status ailment (nor is fainted).
It will only hit 3 times because it uses the Number of Pokemon in your party.
Source: https://bulbapedia.bulbagarden.net/wiki/Beat_Up_(move)