that vacuum sensor assy is the MAP sensor, and it never gets dirty as its signal line has a filter on the inlet manifold itself.
the usual cause of bad running on a 4AFE that has been run on CNG is sludging of the inlet manifold and gummed injectors - a good sonic clean and inlet cleaning (its took off anyway to remove the injectors) along with a new fuel filter will do all the good you want.
Also check the ignition timing.