Herrera took a knock on his left leg during Friday's 1-0 victory over Panama, according to the federation. That injury has become inflamed and the team's doctors decided the midfielder needs more time to recover.
Duenas, a midfielder who also has played fullback for the national team, requested his release. The Tigres player is going to Monterrey to attend to a child who has been taken to the emergency room.
And Araujo was booked in the 76th minute of Friday's contest, prompting a one-game suspension for his second yellow card of the qualifying cycle after being booked in the previous round against Canada.
Mexico clinched qualification to the World Cup with Friday's 1-0 victory over Panama but could top its best-ever point total in the final round of World Cup qualification, when Ricardo La Volpe's team earned 22 points en route to a second-place finish in the Hexagonal ahead of the 2006 World Cup.
El Tri currently have 17 points with three games remaining.