I changed the ignition coil pack, put in new plugs twice and wires, and still getting misfires. Changed the plugs twice becuase the first time I put in Bosch platinum and there were misfires, so I put in OEM NGK plugs (resistor). The car accelerates smoooth at first then begins to misfire after a short distance. At idle I have no misfires nor rough idling, no matter how long I let it idle. Exhaust odor is strong/heavy. Thinking of doing the cam position sensors next?
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check all plugs and check to see if there oil in any of the cylinders if your valve covers have not been replaced there could be oil in there and ruin the plug first try changing all plugs i recommend ngk's plat or iridium if it returns you need find witch cyl or if its 3 or more couls be coil packs or icms located on top of the air box if you have 2.7T
when its mis-firing it is surley putting engine management light on so get codes read.
also when mis-firing need to check to make sure injectors pulsing usually done with magnistick light. if one not working could be injector or feed/earth from engine ecm. also remove and check continuity of coil packs incase another gone faulty.
Spark plugs get there voltage from the ignition coil packs, more then likely you have a bad coil pack or coil pack boot, pull one coil pack or spark plug wire or boot at a time, if you see a drop in rpm, that one is good, if no drop bad coil pack.
This is a manual transmission? If so the clutch probably needs to be replaced. When you say "VIOLENTLY" what is going on, what is the road speed, what are the RPMs at? The more specific information the better. And this problem ONLY occurs between gear changes, right? The other times, everything is normal?
P0306 is a misfire on cylinder number 6. The fact that you have oil on those plugs may or may not be causing it. The oil on the plugs is because of a leaking "internal" valve cover gasket. First thing I'd do is change the valve cover gaskets. Audi will murder you if you want them to do it (I've heard of people quoted $700 or more for this job). It's VERY easy to do. You can order the gaskets from www.ecstuning.com or www.purems.com for about $25 per side. I'd change them for sure, as they're a known issue on these cars.
Now, if your new plugs and changing the gaskets (and cleaning up of course) doesn't fix the misfire, you need to swap coil packs around and see where the code goes. The coil packs are the three parallel items on the top front center of the engine under the beauty cover. Trace the #6 wire back to see which coil pack it goes to. Then swap that pack with another pack, clear the codes, and fire up the car. See if the check engine light comes back and if so, scan the car to see what codes come up. If you still get P0306, then the failure didn't move, and the coil pack is not the issue (in your case, it's likely to be the wire, since you have new plugs and swapping coils didn't work). If the misfire moved to a different cylinder (one which is now hooked up to the coil pack that was originally firing the #6 cylinder) then that coil pack is bad and must be replaced (another known issue on the A4).
You may have a coil pack going bad. They're on the front top of the engine - you'll see them if you follow the spark plug wires back. Do you have any codes from having the engine scanned? If you can get it scanned (AutoZone will do it free), post the codes up and we'll see which cylinder(s) are misfiring. From there, you can swap coilpacks around and see whether the misfires follow the packs or stay in the original cylinders. If they move, you have a bad coil pack or two. If they don't, since you've already changed plugs and wires, I'd see about having the injectors diagnosed to see if any of them are failing.