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Bless you for saving Spotty! It is customary for shelters to not anesthetize kittens who are sick. That is because her immune system is already compromised. Surgery could be dangerous with any congestion.
She is going to need more antibiotics until her lungs are clear before it is safe to operate.The vet may want to change the medication to help her heal faster.Sometimes they develop a tolerance to a specific drug.
Making a steam room by running a hot shower is a great thing to do. It will help to clear her congestion.
You may want to do a chest xray to rule out pneumonia.Mention this to her vet and the antibiotic change.
Please let me know how Spotty is doing. I hope she feels better very soon.