I would wait for a culture to return before doing anything.
Sometimes while symptoms may be alleviated enough to give the appearance that a RI has been cured but yet is still lingering so my first question is this was a culture done initially before prescribing baytril (obviously there are different types of RI that respond differently to different treatment), second question was the treatment prescribe for at least 30 days ( a common mistake is to treat for less than 30 days which can mean that the RI will return)