You might want to cut the following out of your diet for two weeks to see if it makes a difference:
Coffee
Orange Juice/Oranges
Lemon Aid/Lemons
Grapefruit Juice/Grapefruit
Strawberries
Kiwi
Broccoli
Cauliflower
Cabbage
Chocolate
Onion
Garlic (If you like spicy/real flavorful foods you will have to check ingredient lists. It is amazing how many things contain garlic.)
My first child had absolutely no problem with what ever I ate, and I nursed her for 27 months. I'm now nursing my second child who is 13 months. She becomes absolutely miserable if I have onions, garlic, broccoli, cauliflower or cabbage.
I don't know if this will affect reflux at all, but it certainly wouldn't hurt to see if she has any food sensativities. If cutting out all of the above DOES make a difference, add things back - one at a time - every 5-7 days. If she suddenly has problems again, you found part of your problem. Also, be sure to keep her head a bit elevated for at least 15 mins after eating so that the stomach has a chance to start digesting the meal before it has to "worry" about keeping things down.
All that aside, stomach acid can do some fairly serious, life-long damage to the throat. Keep that in mind when you are deciding whether to medicate.