One way I've wondered about would be electrolysis, with the electrolyte placed only in the barrel. It would be tricky, you'd need to somehow seal one end of the barrel and suspend the anode in the solution in the barrel without touching the sides.
But why worry about it? Bore rust is hard to see without effort, and any rust is soft so its presence or not in a bore doesn't affect accuracy. If you keep moisture out of the barrel and a lubricant barrier on the bore surface the rust should not propagate further. IMO rust does not effect accuracy as by definition it is below the surface of the bore, as long as visible rifling is present the firearm will be accurate. I don't own any rifles with rust in the barrels, but I own some Luger shooters. One has a pristine bore, the others have bores that are fair to good due to wear and rust, all are equally accurate.
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