Royal Caribbean cruises that originate in San Juan will dock at the Pan American Pier, which is across the channel from the San Juan Cruise Port. It's adjacent to the Isla Grande Airport and is about a 5 minute taxi drive from Old San Juan. As you're driving in, you should be able to see the ship docked since there isn't much around there.
The San Juan Cruise Port is the largest and busiest cruise port in the Caribbean. There are 4 cruise ship piers and 2 modern terminals along the southern shores of historic Old San Juan with a total capacity to accommodate 7 ships at once.
Location Royal Caribbean cruise terminal-San Juan - Fodor's Travel Talk Forums
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It is conveniently located in the business district too. San Cristóbal was built to defend the city against land based attacks and is larger than El Morro.
These would usually take Baldorioty Avenue going to San Juan. Various voyages also depart from other Caribbean ports such as Bridgetown in Barbados and.
The closest major airport is the San Juan International Airport, which is 8 miles east of the Old San Juan piers and 7 miles east of the Pan American pier.