I recently replaced my ignition module on my truck. It fixed the problem of it not starting but I am now having an issue with it idling rough. After starting it will idle very rough until I take and adjsut the distributor cap by rotating it by hand. It will run great for a short time and if you watch it under idle the cap will slowly rotate back to where it runs rough. Did I forget to tighten a screw somewhere that holds it in place?

Clean Throttle Body (both sides, not just what you can see) and MAF (mass air flow sensor) [spray and shake to dry].

https://www.google.com/search?q=2001+Ford+Focus.+running+rough+and+power+surges
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Clean the Throttle Body and MAF. Common fix for rough idle.

https://www.google.com/search?q=2002+chevy+astro+clean+throttle+body

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You read the codes so what were they exactly? That is only half of the issue. You can have codes that are showing up because something else failed. There is no code that says "replace injector"

This could be caused by a variety of problems. If fuel injected I would start with a cleaning of the throttle plate assembly to insure minimun idle air flow is achieved. Does it run rough at idle or misfire? You may have developed a vacuum leak. Check for any loose or disconnected hoses under the hood. You could also have the onset of an ignition module failure. This condition is very hard to diagnose without lookinf at the vehicle. Hope this helps

Could be the idle air control, once these start hanging up inside, they can cause as variety of problems with idle speed (can become wildly random) or simply a failure to idle at all.

These links should help:
Where is the idle air control valve located on 2004 Dodge Stratus

2004 stratus idle air control Bing

This could also be caused by a failing ignition pack.

injectors and or vacuum leak
run the fault codes as that will get closer than a guess

a bad ground or battery can these.

run a fuel pressure test, if that checks out fine it may be a faulty coil pack or ignition control module

Check the ignition control module. Sounds like the exact same problem I have had with mine. Took it to the dealership and the were able to tell me right away. The ignition control module is very easy to replace and is located on the top of the valve cover. Hope this helps!

I think you got your answer to the alarm issue. I had the same problem with rough idling, lack of power, and the chugging that occured when going up hill. I have a 1991 Park Avenue with 190k miles. Fixing the catalytic converter helped, but the real problem was in the ignition control module. It seems that older buicks will heat these units to the point that the glue inside melts and eventually exposes the electronics. Look for glue or exposed wires below the ignition coil. It's a $100 part that you should be able to change yourself. I hope that helps.