your looking for something like a aquacomputers aquero. You can leave the plate inside.
Its a software controlled fan controller so to speak.
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You need the Aquabus option for the 2.5A header ports.
But this should be what you are wanting.
Its very pricey, and also very complicated, and somewhat annoying when it doesn't.
I had one, but don't use it anymore, as its far too much work, then just doubling up on quiet fans.