This is all very interesting in trying to elucidate the events that may set one up for acquiring ME/CFS. Thank you for posting your fascinating article.
As I did not recall any horrible interactions between these meds I looked it up. Apparently there's been some controversy, but the bottom line is that when taking erythromycin (often prescribed for pneumonia) and theophylline (used for bronchodilation in asthma and COPD) are taken together, the levels of each drug in the blood can be affected. The clearance of theophylline can be (isn't always) decreased, meaning that levels of theophylline can become higher than desired, potentially to toxic levels. Conversely, e-mycin levels can be lower than desired, so that the antibiotic treatment is not as effective as desired. In this case, it sounds like the concern was for theophylline toxicity, which can cause nausea, vomiting, agitation, electrolyte imbalances, cardiac arrhythmias, irritability and seizures. Theophylline is notoriously difficult to dose, having a narrow therapeutic index, meaning that there isn't much difference between the effective and the toxic doses. It isn't used much anymore, now that there are more, safer, bronchodilators on the market.
As for studies of the effects of theophylline on cortisol, the ones I've found so far didn't show a significant impact. I did however, find evidence that theophylline inhibits NK cell function, which is interesting, as the proposed mechanism is through the action of phosphodiesterase inhibition. What is the most common phosphodiesterase inhibitor? Caffeine!