One thing you can double check is the two solenoids that sit on the front of the intake manifold. Those control the vacuum actuators for the variable tumble control and secondary shutter valves inside the intake. It is possible they broke the vacuum line on the solenoid and it would run fine but have a slight vacuum leak on cold start while the tumble control is operated. Just take a look at those solenoids and verify they're ok. It's easy to break those while leaning over the engine replacing the plugs. The solenoid were moved to the back of the cylinder head on 08 and up.