As stated above it's unlikely you permanently dyed him and I agree with the advice to just soak the tail tip next time
For the tail rot I just wanted to double check, are you ensuring that your snake's tail tip is coming off with the rest of the skin when he sheds? Just wanted to make sure that the tail rot is not actually the tail dying because layers of unshed skin are restricting the blood flow since you said you noticed it with his last shed.
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