This is sounding like a Engine Temp Sensor is starting to go bad. On my SL1, when its Engine Temp Sensor started to fail, caused the engine to sound like it was misfiring plus some other nasty side effects. On the 2000SL1 the Engine Temp Sensor has a plastic housing which has a tendency to crack causing a failure in the sensor, which confuses the heck out of the Car's management computer.
Other symptoms of a failed Engine Temp sensor is a Higher Idle RPM (1500-2000ish), a pronounced fuel smell in the exhaust, the car will be harder to stop since the REVs are up.
The Engine Temp Sensor on the 2000 SL1 can be easily replaced. I replaced mine with a Nascar performance one with a brass Housing, 20 some -odd bucks at CANTire.
To Replace the Sensor locate it on the drivers side of the engine block just under the EGR valve. Disconnect the Conductor/connector from the sensor. This is the tricky part, you can remove the sensor without having to drain the coolant but you must be fast enough to plug the hole with your finger (make sure that your engine is cooled!) when you remove the old sensor. Have the New sensor readily avaliable so that you can remove the old one, plug the hole, then reinstall the new sensor. Placing some shop rags to catch some spillage will also help. Reconnect the Sensor cable and Voila! Results will be instantaneously noticable when you start the 2000 Saturn SL1, idles smooth, gas smell gone, car will drive infinitely better.
Hope this helps.
One idea...I just repaired one with a similar issue. Would run badly untill it warmed up a little, mainly right after starting. This case it was a coolant sensor. With a "live data" scanner, you can see what the sensor is reading. (It was 70 degrees F outside and the sensor showed 20 degrees F.)
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