In the pictures, it doesn't look like they are, they look older. However there is no rule about that, in fact the only balls that have to be brand new is the 12 footballs that are used in the kicking game. I don't see what the issue is. Teams get to practice with the footballs that they will be using during the game, and get them how they want them to be. This is because in the past the footballs used to come right out of the box to the officials, and it was their job to break them in a bit, get the film off the ball (which is reddish and makes the football lighter), which they did a poor job. So a little over 10 years ago, they decided to allow teams to practice with the footballs that they were going to use during the games, so QB's can get them how they like them.
Brady probably likes them more broken in, so they probably have someone who really rubs them down. Rodgers probably likes them newer (they did say he loves to have them very inflated, as it makes it easier to throw them hard) ones, and thus doesn't break them in as much.
So I'm just not seeing the issue here.