I assume you mean, rebar stains where it bled through the gunite and plaster? And not stains where pieces of rebar were left on the the pool? If so, I think there's a fair chance of future bleed through. But there's no guarantee.
You're not using a salt system are you? If you are, I'd stop. There's no guarantee that lowering the corrosivity of your pool water by getting rid of the salt will help -- again it depends on whether ALL the rebar is close to the surface, or just those two sections -- but it won't hurt.
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