Jodi, I know how it is. Your experience is way too similar to mine. The ups and downs of it, etc.. Thought it was done, then wham, back with more lung issues. Mine felt like it was on the verge of becoming pneumonia. I've had that before a few times, so I'm familiar with the signs.
I never took antibiotics, but was prescribed an albuterol sulfate inhaler. The docs here have to do a chest x-ray before prescribing antibiotics, and they aren't taking in patients unless it's become an emergency. I was skeptical and thought antibiotics might still be needed, but I am making progress. Temp is down, coughing much less, not feeling winded so easily, energy level much improved.
You might benefit from an inhaler at some point, maybe now. It's a very slow recovery process. Mine has been over two months already, and it's not done yet. Be patient with yourself and stay in touch with your medical staff. They need to know what you are experiencing and how long.