Flashing check engine light - spark coming from small module box on top of engine - spark plug wires run into that box - engine running rough - any help would be appreciated - Jack

cap ,rotor ,spark plug wire , spark plug could misfire....
the check engine light flash because it's a severe misfire and fuel go to converter catalyst.

The power output stage hi and low (basically the ignition module) this is what powers the coil and can cause misfiring if not working properly.
This is located by the computer (e-box) it has 4 plugs, 2 on one side and 2 on the other.
Other possible issue for misfire are: loss of compression bad injectors electrical problems bad ECU

A flashing check engine light is usually caused by a misfire. I'm guessing that the engine is running a little rough? Some things you can check are the spark plugs and wires. You can check the wires by spraying them down with soapy water and seeing if they leak.

If the engine is misfiring you can pull each spark plug wire or coil off of the spark plug one at a time with the engine running to see if the engine runs worse or stays the same. Be careful cause you can get zapped by 40,000 + volts and it can tickle a bit. Once you find the cylinder that doesn't change how the engine runs you can focus on that wire and spark plug. Look for carbon tracking on the plug itself. It will look like a dark black line running down the plug and the porcelain will be slightly erodded under it. If you see this you will need to change the plug and wire.

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flashing engine light means engine misfire. let car idle and mist the plug wires down with water, rev the engine up and down and look for little sparks jumping from the wires. and arcing wires can cause problems. before changing any bad wires check the coil packs where the wires plug in the three small boxes on the top back of motor. they are three packs with two wires each. one pack at a time take the two wires off to reveal the coil towers. have an assistant start the motor and make sure the spark goes from tower to tower. repeat on remaining two packs. if the spark goes straight down the tower the coil needs replaced. if there is no spark, the coil needs replaced.

Hi:
usually misfire codes are caused by a bad coil pack or an ignition module. You didn't do yourself any injustice by changing the plugs and wires, as that is good preventive maintenance, but you need to keep up the hunt for the problem. You can visually look over the ignition coils, and the modules too, but often they visually look ok, when they act up like yours is doing. You are down to trying to swap out some more parts!

usually when it gets colder outside the car will misfire and run rough because the ignition module/coil pack goes bad and makes it misfire,youre gonna have to replace the coil and module,,its the black long piece that sits on top of the spark plugs,1 wire connector and 4 10mm bolts remove them and pull up hard to pop the plug boots off the spark plugs,then install the new parts and you should be ok

Plug Mis-firing (firing-but not adequately) no light and no fire.
Causes: Spark plug bad, spark plug wire leaking.
If you can pull the spark plugs - and you find that one of them is wet or very dirty - compared to the others....the you have the wire/plug source identified.

Here is a list of possible causes. You should not drive the vehicle if the check engine light is flashing all the time, you can cause even more damage. It could pay to have a professional find the real cause.

Spark plugs that are incorrect for the application, cracked, improperly gaped or worn can cause the engine to misfire or run rough at all times.
An IC module that failed to correctly control the ignition coil(s) will cause the engine to misfire or run rough at all times.
Poor connections, broken wiring or wiring that has shorts to ground can cause the engine to misfire or run rough at all times. NOTE: Check connectors that might be pulled apart as the engine flexes or wires that short to ground as they pass near brackets or shorts to ground on the exhaust manifold.
Fuel injector(s) that are shorted, plugged or partially restricted can cause the engine to misfire or run rough at all times.
An ignition coil(s) that has low output, corrosion on the coil tower(s), is carbon tracked or arcs to ground will cause the engine to misfire or run rough at all times.
A PCM that failed to properly control the injector or ignition timing will cause the engine to misfire or run rough at all times.

Spark plugs/wires might need to be replaced. Check your spark plug gaps and check your spark plug module harness connection on both sides of the engine. The check engine blinking indicates short/misfiring. If there is short in the harness, you can check it by moving around the wires close to connector one by one while the engine is running. You might need to remove and ckean the Throttle Body.