It was the second-biggest haul of cocaine made by the Central American country, it said in a statement.
Those arrested were eight Guatemalans and one Salvadoran. The intercept took place 335 nautical miles (620 kilometers, 385 miles) off the coast of El Salvador.
Drug smugglers often use go-fast and other small vessels to transport cocaine from South America to North America via Central American waters.
In October, Salvadoran authorities intercepted a small submarine carrying 1,681 kilos (1.8 US tons) of cocaine and arrested the three Colombians and one Guatemalan on board.
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