No, Howard Webb is appointed by a governing body, i.e. The FA, whereas in these cases academies appoint themselves (but not in all cases). That does not mean that we favour decisions in any way for one team; the same rule applies to both teams in the case of 'no cards'. If we didn't follow that way, and started doing whatever we wanted, we would not get games there. I know a ref that started there, he wasn't aware of the no cards issue, carded a player, afterwards was told there aren't cards at the level usually and he said oh, that's fine, I won't use them again then.
In my experience it doesn't cause a problem, instead increases the power you have, because if they're not playing game time, they can't get noticed for what they're doing, and if they're causing the academy problems then the academy will release the player.
If a player is causing me problems, then I will asked for him to be subbed. That makes it easier for me to control a game. He then causes me no problems afterwards, and I make it easier for myself.
I have no problems in working the no card system in academies, because managers are co-operative.
My decisions are not swayed in anyway because of the games, but it's just a different approach taken with players.