Having trouble with engine killing or running rough even after it's warm.

Fuel Injectors
Use an ohm meter to check your fuel injectors (with the engine running), by removing the wire from the injector. Two metal prongs sit inside the connector. Set the meter for the ohm setting. Touch the red meter lead to one contact and the black lead to the other prong. The ohm resistance number should be the about the same for all the injectors. If any injector reading shows a higher or lower than average number, the cause will be a defective injector, which will cause a rough idle. A zero reading will indicate a shorted injector, and must be replaced. You can also use a stethoscope or a long handled screwdriver to place on the injector head. You should be able to hear a clicking sound, telling you that the injector is "pulsing." No clicking sound indicates a dead injector.
Carburetor-Equipped Vehicles
Examine the choke setting on a vehicle equipped with a choke adjusting knob or mechanism. Make sure the choke operates by opening slowly during normal engine warm-up. A choke that fails to open or sticks shut during warm engine running will cause a constant misfire and rough idle. A choke stuck in the open position will not allow an engine to warm up properly.
Trouble Codes
Hook up a portable trouble code tool for your specific Ford make and model. Look for any trouble codes that appear while the engine runs at idle. Write down any code number and look it up in a trouble-code manual. Most times, code numbers can pinpoint the exact system failure or miss in the engine.
Powerful Autel MaxiDAS DS708 Multi language Diagnostic tool

Overheating, maybe? Get a technician to read the diagnostic codes (or rent/buy the tool to do it yourself) they will almost certainly tell you what is wrong.

If the sensor detects a problem, it sends a trouble code to the ECM and your "check engine" light will come on. IMO, your symptom sounds like "cold engine" issue. Myself, our 98 Toyota Rav4 will idle rough and engine stalls when put in drive, but the problem goes away when temperature shows the engine had warmed up to operating temperature. FYI the temperature sensor monitors the radiator coolant temperature. Normal engine temperature is when coolant reaches 120 degree fahrenheit. At around 130 to 140 degrees fahrenheit, the coolant thermostat opens to let radiator coolant flow from "bypass" mode to "enter radiator" mode. If it takes longer than 10 minutes for your engine to warm up, its possible the coolant thermostat is stuck in open "enter radiator" mode. When thermostat is close, coolant radiator bypass the radiator to speed up engine warm up, but if its stuck in open, it will take longer to warm up the engine. Another factor is ambient temperature. If its cold below 50 fahrenheit, it will take longer to warm up the engine.

they are correct change the fuel filters

Replace the temperature sending unit/sensor. This sensor tells the computer to put the engine into cold start mode and it then sets idle a bit higher and puts a bit more fuel into the engine to keep it running without having to touch the throttle. Once it's warm, sensor tells computer to go to normal run mode and it's done. No problem.

sounds like a faulty secondary air system or cannister fault.
Check the air cannister and/or charcoal cannister for damage.
Check for damaged or burst air hoses.

check wiring and connection if good replace knock sensor

More than likely something was disturbed accidentally,a connector to a sensor,a sensor itself,possibly even a vacuum line,although a vacuum leak will usually result in a high idle,but an engine that wants to stall,so visually check all these items.At this point,i would do the visual checks,and also scan the vehicle for any possible trouble codes,as a trouble code will point in the direction of the problem.Places like Auto Zone will pull the codes for free.

Its because that the engine is very cold, try to worm it up more time before you start driving.

there is a cold start fuel heater in the inlet maifold try to see if thers power to it first if so just replace it should sort your prob
andy