If you can, I'd try to get at least one good nap out of her daily, so maybe try for the first nap and cut yourself some slack on the remainder. Short-napping is often a sign of UT, so I'd aim to break the cycle with the first nap first.
Are you sure the reflux itself isn't contributing? Silent reflux can be so tricky, and if that's what's waking her, if she's gained enough weight to need an uptick in dosage, might be another thing to check.