I managed to give my gelding scratches with an overzealous application of fly spray once!
Here's what the vet told me to do. Clean the area with a very mild soap (I used ivory hand soap). Wait for it to dry completely, and then apply desitin. Re-apply the desitin daily. If the area gets really dirty, repeat the wash with the gentle soap and then re-apply the desitin.
This cleared it up within a week or two!
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