I sympathize with you E.. You just didn't need this extra worry. He may have "caught a bug" and is sick. He'll be OK in a few days. Giving him Motrin is the right thing to do. I've read that alternating doses of Motrin and Tylenol works better than using just one does. You could try that if the Motrin stops being as effective.
I'd also ask if you are actually taking his temperature with a thermometer. Both of my grandkids frequently feel like they're burning up when I touch them. Nearly always they have only a minor fever (99 degrees) or no fever at all.
Since he seems to feel good part of the time and then feels bad again I wonder if he's reacting to the stress you're all having over the difficulties of giving birth. This would be quite natural. And I would think that you might be more worried than you ordinarily would be because of the pain and frustration you're feeling.
Next to impossible to do, I know, but I'd try to spend time focusing on ways to relax. Geiger will be OK.
Another idea: When he once more acts sick is it time for another dose of Motrin? Motrin is safe if given as directed on the bottle. Perhaps you could give him a dose more often?