How much of a role do you let prejudice play in your campaign?

[Laserlight]

First and foremost for me will always be the players. If you’re okay letting one of the players be uncomfortable for the sake of a game, then I hope that player finds a much better table very, very soon.

You're not getting the distinction between "the character is being discriminated against" and "the player is uncomfortable". One does not imply the other.