Fan controller going nuts
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Solved by Juan Remes,
First of all try running each one of the fans directly to your PSU, make sure its not a fan problem rather than a controller problem, if all your fans run 100% all the time from the PSU without speeding up or slowing down then yes, its a problem with your fan controller. Make sure you read the controller´s manual and that you are not exceeding the voltage or amperage supported by the fan controller. Identify which fan slows down and speeds up and then disconnect another fan, see if it still behaves the same, ask the manufacturer if this behavior is ok and if not ask for a RMA.

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