No check engine lights, fuel pressure seems fine. There was no problems till I changed out the intake manifold.
Did you disconnect the battery during the work?
Have you inspected the inside of the throttle body bore? Is is dirty?
Over time, the car’s computer will compensate for the reduced airflow as the inside of the throttle body bore and butterfly valve get dirty (and let less air bypass the blade at idle).
If you disconnect the battery, the car’s computer resets to its original programmed idle - assuming the throttle body bore and blade is clean. If it is dirty, it can cause a rough idle as there is not sufficient airflow in the throttle body at idle.
Cleaning the inside of the throttle body bore may improve the idle smoothness for you.