The center is served by six fixed-route local and inter-city transit services.

Arcata and Mad River Transit System offers service around Arcata, Redwood Transit System provides service between Arcata and neighboring towns in Humboldt County, Redwood Coast Transit offers service to Crescent City, California, and Blue Lake Rancheria Transit System offers service between Arcata and Blue Lake, California.

Amtrak Thruway buses stop here on their way from San Joaquins and Capitol Corridor trains at Martinez to Arcata–Eureka Airport in McKinleyville.

Arcata Transit Center is also the northern terminus for Greyhound Lines once daily route to/from San Francisco.

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