Personally, I like neoprene booties either in trail runners or speciality water walking shoes.
Neoprene booties have worked well for me on coastal trails, walking in the surf. And on slot canyon hikes like Zion Narrows.
Kurt Papke has a good overview online.
Click PLAY or watch it on YouTube.
besthike.com 
Reminds me of hiking on the West Highland Way. Where water diversion path doubled as trails. No neoprene, unfortunately. But waterproofing boots prior to the hike, and wearing waterproof gaiters, worked when having to walk in 4″ of water or less.