http://www.2carpros.com/articles/engine-misfires-or-runs-rough

1.Defective spark plugs
2.Inadequate spark/coil,defective spark plug wire.
3.Lack of compression
4.False air leakage.
5.Faulty fuel injectors.
6.Insufficient fuel pressure.
7.Contaminated fuel.
8.EGR valve that is leaking.
9.Oxygen sensors.
10.Throttle position sensor.
11.Manifold absolute pressure sensor
12.Mass Airflow Sensor
13.Idle air control valve

Note: If it doesn't apply disregard it

Answered by rasmataz
68 questions asked