I am thinking that the fuses are to power the amp, maybe the speakers too. I would look for shorts in the wiring for the speakers. Check both the connectors at each end of the speaker run. If it look good, than disconnect the wires at both ends, and use a meter to see if there is a short or not.
You could also do: Turn the volume down to disconnect the speaker wires at the amp and turn it on. Only turn it on for seconds, did the fuses blow. If not, I would think you have a wiring problem. If it blows, it sounds like the amp.
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