Confidence votes 9. your throat should not be sore. It may feel a little funny at the least. You can not swallow a pill the wrong way. If I were to guess you had the pill graze against the lining of your esophagus.It will leave a weird feeling for a couple minutes.(The above current answer is condescending-obviously the throat of the person asking the question IS sore.).ou can not swallow a pill the wrong way. If I were to guess you had the pill graze against the lining of your esophagus. It will leave a weird feeling for a couple minutes.