"We acted on a request by the Maldivian authorities," Fernando told AFP.
"We have no information to suggest that the suspects are Al-Qaeda."
The Island newspaper said the arrest of the Maldivians at Sri Lanka's only international airport triggered speculation that the suspects belonged to the Al-Qaeda movement of Osama bin Laden.
Maldivian dissidents based in Colombo charged that the Male government is using the Sri Lankan police to crack down against political opponents and journalists.
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In December, Sri Lanka's police raided a Maldivian radio operating in exile in Colombo following an Interpol report that it was involved in gun-running.
Police dropped the case after finding no evidence to support the report originated by the Maldivian police.
- Amal Jayasin