Once you've got the PH issues settled - as you have with your flush, you should be just fine as long as you make sure your feed/water is ph balanced from here on out. Best way to test that what you're giving her is ok is to test the runoff! I found this out the hard way... for some reason, even though I thought everything was balanced, the runoff proved me wrong... so test the runoff!
Since the PH had gotten terrible acidic, you'll probably need to wait a couple of days to see significant improvement - but you will, I assure you, you will!
Good luck!