Okay, made a scenario that has a waterworld map, and currently two civs roughly placed out. The only thing is when I went to play the sccenario the cities disappered. Anyone know why? The problem may lie in the fact that the game is made for 8 civs and only 2 have being implented. Is that it?
When asking about scenario problems, please try to add a little more about the kind of scenario. This would help quite a bit.
Not knowing more, let me say this. You can't place cities in a scenario. To be able to place cities you must create a savegame which is the 'FullGame' option. And then you must track who is player 1 and only play as that Civ.