2002 Saturn SL1 rough, sputtering idle - cylinder #1 misfiring

P0171 FORD - Fuel Injection System Too Lean Bank 1 https://www.autocodes.com/p0171_ford.html

P0301 FORD - Cylinder 1 Misfire Detected https://www.autocodes.com/p0301_ford.html

Have you checked for spark on cyl one and the function of the injector ?

The PO 316 is still misfires om first 1000 revolutions
so the shop did a poor job for you on resolveing the
cylinder misfires

Try a diffferent shop

Have to clean the MAF Sensor & replace upstream
oxygen sensors if over 100,000 miles

Need the correct oem spark spark plugs/any brand

No reason the gas filter should be clogged unless it was in
the car for 10 years

Fuel pressure should be checked

Need to check for cylinder misfires on a road test of 20
miles or more with professional software in Mode#06

A number 3 cylinder misfire will not cause a high idle-a throttle position sensor or (most likely) the Idle Air Controller is gunked up with carbon and is hanging open. It can be removed and cleaned with throttle body cleaner, just clean the bottom half and avoid spraying the inside-top as it will mess up the electronics. They aren't cheap (over $100) so it is worth a shot cleaning it. The sputtering you are experiencing IS probably a #3 misfire and that can be caused by a bad plug wire, a vacuum leak, plugs needing replaced, or possibly a coil that is defective or not grounded properly. You should have a check engine light, and that code would help greatly-I would almost expect, as a generalization, a misfire at #4 since that is the cylinder that is monitored for codes dealing with camm sensors (it doesn't have a cam sensor, that is just Saturn's way of warning you that you might need a tuneup). Your clunking when shifting is a valve body issue, and it is because the trans needs to be or has not been serviced often enough-changing the trans fluid in a Saturn is as easy as it gets, it is like an engine oil change ans should be done every 30,000 miles, at most. Change your fluid, use Dextron III and a new trans filter (it is a spin-on and lools like an engine oil filter)-do this now, do not let it go, because the trans will only get worse, and that slamming into gear will damage the input shaft.

replace the coil it is most likely bad. observe the engine at night or in a dark environment and proceed to use a spray bottle to lightly coat the coil pack for that cylinder number 3 and if you see an arc at the coil or any where else this will confirm a bad coil but even if you don't see any arcing it still may be a weak coil.

clean your throttle and change air filter

it is possible that its set to do that,its called a afterblow option,so it turns off and on byitself as a way of keeping the evap core dry,,may be normal

a pit\ston might not be working properly

Intake manifold gasket. Leaking where intake meets head.

spray carb cleaner on the intake manifold near cylinder 1... common problem is the intake manifold gasket leaks vacuum causing a misfire...the not starting could be due to a faulty crank sensor