I'm just curious how you all laid out your Legendary box. I know they gave us separators and grooves for each batch of cards but I travel frequently and my cards usually end up very messed up each time that I open it. Is there an optimal way of doing it that I'm missing?
Have you sleeved your cards? The box was really meant to hold sleeved cards. I've sleeved mine, and the cards are all nice and snug.
Also, My friends want to play Loki and Cosmic Cube after we pop in for a Marvel Movie Marathon, but the game specifies 5 Heroes only. Not wanting to take out one of the 6 Avengers, is there a way we can 'balance' it so it's still fair?
I'd say just have fun and not worry about it. If you want to play with 6 heroes, play with 6 heroes. I don't see it unbalancing the game a whole lot. If anything, my first thought is that it will water down the hero deck with more lower powered heroes, but I could see the argument the other way, too. Anyway, if you think it's too easy with 6 heroes, you can up the power of the mastermind and/or add some scheme twists. Check out the "Adjusting Difficulty" section on page 19 of the rulebook.