I spoke to my vet (who also boards at my barn) and she suggested keeping his stall extra clean, which gave me the backing I needed to be very, very thorough about cleaning his stall every night when I go to take care of his hooves without the BO thinking I'm just using too many shavings for the heck of it (the stall gets cleaned out by barn staff every morning, but I'm not convinced they take out enough of the wet bedding
Anyone have suggestions on what should be done about that?
YES!! First, if you can, take over stall cleaning. COMMUNICATE with your BO, so she/he knows what and why you are doing this--I'm sure you BO will understand.
You MUST get rid of the waste ESPECIALLY urine soaked bedding. I use Equine Fresh (super dried, pelleted pine pellets, which are sold by several companies with different names). It's nothing but pine, so they can even nibble on it without problems. I spot where my horse prefers to urinate in the stall and I pour it only in the urine spot. I use one 40 lb. bag for my mare (~1,100 lbs.) and 2 bags for my gelding (~1,400 lbs.).
This is for a full week of 1/2 day (night) in the stall and 1/2 day turnout. It soaks up the urine 2x, first turning to a powder, then turning to a wet powder and the wet powder is what I remove. You may want to remove it as it turns to a powder. It eliminates the ammonia from the urine and keeps that from being picked up by the hoof. I cover this with pine shavings. Don't worry that the pellets will hurt your horse, they won't. It's perfect to go out to the manure pile bc it breaks down in a few months. I know, bc I use this winter's stall waste for next year's gardening.
Another thing to try is to treat the hoof, let it dry, then bind it with a disposable diaper, which is duct-taped to the hoof to keep it on. Call your Vet to see if he/she approves, or if he/she would prefer the thrush get fresh air.
Some companies sell 40 lbs. for $6.00/bag, but one of my local farm supply stores puts it on sale for $5.00/40 lb bag, and I buy 10-20 bags at a time and store it. I have enough to see my through New Year's right now, and will buy again at the next great sale to see me through next April.