Does the City discovery tile grant the owner an additional vp per settler at game end on top of the normal territory scoring, or does it simply allow him/her to count any tokens that have been conquered by other players? (i.e. count all tokens once, or count them twice? Makes a big difference).
Yes, in addition to the usual 1 vp territory scoring (2 vp per Atlantis territory) for territories a player controls.
• Each “normal” territory is worth 1 point (a conquered settler does not earn any points).
• Each Atlantis territory is worth 2 points (a conquered settler does not earn any points).
City: the player earns 1 point for each of his settlers on the board (including conquered settlers) at the end of the game.