config.IsFullscreen = 1
config.IsFullscreen = 0
config.XInput = 0
config.XInput = 1
C:\Program Files (x86)\Kalypso\Tropico3
Please delete the %APPDATA%\Tropico 3 folder completely (you may copy the "Saves" folder and paste it back there after deleting). The game configuration should be reset and your game should start without problems.
If the previous fix didn't work, run Tropico 3 in Windowed mode.