Ok, yes, you are probably having a secondary low grade infection from the braces. Movement in the teeth causes inflammation and swelling to occur. What you are describing though sounds like a chronic type of tonsillitis that can linger for many years. If antibiotics took away the pain then it was definitely bacterial in nature. The lymph nodes can remain swollen, really, forever because of scarring that occurs to the lymph nodes after having been infected for such a long period of time. This is my very best guess without seeing you (you need to realize I am going strictly on what you are telling me and I cannot actually look at the situation!) (smile!!)
I know that when tonsils become scarred they may catch food and other materials back there. Yes gargling with Listerine is good but also gargling with straight peroxide (the one in the brown bottle that you buy at the grocery store.... not the peroxide you put on your hair!!). The peroxide your mother used to use to rinse off a cut or scrape. You can rinse your mouth out with this and gargle with it. This gets a lot of healing oxygen to the tissues back there and many times will begin to clear this area. Also hot salt water rinses really do kill infection. Get as much salt in it as you can.
I hope this has helped you. Would you please give me positive feedback!!!
Thank you
DrAustin
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