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Done and replied: they're offering to re-coat adding an anti-oxidant primer gratis so it seems you're right with regards the original frame prep. I still can't figure out how moisture is getting in to those areas-even the bit on the left fork blade is totally cut/chip free. Anyway... best to get it sorted.
I think it makes colour choice more limited though so no more electric-purple beastie :(
Send them the photos explaining the situation. IDK much about paint, but IME power coats are usually brutally durable so your situation seems odd. My guess would be someone didn't prepare the surface properly.