I don't have this problem on my lily leaves, but I have noted a LOT more fungal issues in my vegetable garden this year. My cucumber leaves are covered in fungal spots, but the plants are still flowering and producing fruit, so I just keep cutting off the diseased leaves. I think the extreme rainfall in July is to blame for a lot of the fungal, mildew, etc in my area this year - not sure if that's the case for you
@MoonShadows .
If it's any consolation, most varieties of waterlilies are generally very hardy. If the problem is only affecting the leaves and not the tuber, the plant will survive. I had some tubers that I was trying to re-home last year so I had them in a shallow pan with some water. I ignored them for too long and the water dried up and they sat there for probably a week or more - I thought they were goners. It rained and the pan filled up - the tubers sprouted. I tossed them in our neighborhood pond and this year they are growing and blooming LIKE CRAZY. (Better than the ones in my pond! haha!) Long story short - they are tough to kill!