I apologize! I was away yesterday and just saw the tag now.
You mentioned earlier:
"Only one day left to figure this out for my first time. Circulated air, egg turner, LG.
When temp is set to 99.7, variation is from 98.45 to 100.6, but over the course of 5-6 hours averages about 99.6
When set to 99.8, variations from 98.89 to 100.8, again averaging about 99.6.
When set to 99.9, it no longer dips to 98 but the high is hitting 101.3.
Where would you set it? My guess would be 99.8, but I'm concerned about the lows being that low..."
I have a few questions.
1) Does this particular incubator have a fan for circulation?
2) What is the average temperature when once your incubator is set at the last setting of 99.9?
3) What is measuring the temperature in the incubator? Do you have separate thermometers and have they been calibrated? (Or did I miss that? I haven't been to bed yet)
4) Do you have your incubator in an area with stable temperatures, free of drafts and/or heat like sitting near a window with exposure to the sun?
Here's my short answers to the information you've already given.
First of all and most important, take a deep breath.

I do understand the stress incubating can put on a person, especially when you are new to it. So far you are doing fine. Actually better you're doing better than fine because you've educated yourself.
Please know that unless the incubator gets much too hot and cooks the eggs, one day at 99.3 should not be detrimental to the eggs. Around day five of incubation, I've had eggs left cold for approx 11 hours in 6 C temps (43 F). I've also had eggs left out for 12 hours and then brought in and finished for the remainder of the incubation. (I've even had an egg left cold for 60 hours then put back into incubation and she hatched. I just saw her interested in the nest boxes!)

Hopefully, this will help to put you at ease.
I'm much more familiar with incubation with a fan as that's all I've ever done. If it were me, I'd choose one of the last two temps; 99.8 or 99.9 as long as you are 100% certain that IS the temperature in the incubator. Thermometers require proper calibration. I also would not trust the incubator's temperature reading unless calibrated. I shoot for approx. 100 with my incubator with calibrated thermometers for the different egg levels. It uses a wafer thermometer and once shut the fluctuations are only .3-.5 degrees.
I would say you want to shoot for the average temperature once everything has levelled out. If you open the lid to move eggs around, the temperature should stabilize fairly quickly since the eggs are already the proper temperature. Others have also used heat sinks as mentioned earlier in the thread. i haven't used this method, but I think it's a good idea if you find lots of fluctuation.
I don't use a turner, but from my understanding...the eggs near the motor should be moved because of the heat generated by the turner motor. I constantly shift my eggs down the line and then over to the next row. I hand turn so I open my incubator quite a lot.
Here is a pic of my homemade incubator with four levels of eggs in it. I take all the eggs out and hand turn them individually in their racks. I will shift the racks around in the incubator instead of the individual eggs when I have this many in it. It makes things easier to keep track of.
I'm hoping this will also put you at ease to see that this can be done and chicks can be hatched from this.

(Please note: The digital thermometer is not reading the correct temperature.)
See the chick hatched in the bottom. Also, note the one light burnt out during the night. Not detrimental enough to cause damage when out for such a short time.