Police searched the seven-storey building housing the Maldives Independent website whose editor was quoted in the Al Jazeera documentary aired last night detailing high-level graft allegations.
"We believe the search was part of an attempt at intimidation," a Maldives Independent journalist told AFP. "They looked at rooms and even the toilets, but took only a broken CCTV unit."
There was no immediate comment from the police.
The documentary is the latest twist in a protracted political crisis that has dented the Indian Ocean archipelago's reputation as an upmarket holiday destination and raised international alarm about an erosion of democracy.
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The editor of the Maldives Independent left the country before the documentary aired, fearing the government would slap charges against her under a tough defamation law.
Former Maldives auditor-general Niyaz Ibrahim, who alleged in the documentary financial irregularities under the Yameen regime, also reportedly left the country on Wednesday night fearing persecution.
Yameen's government labelled the documentary disappointing, saying it mostly contained allegations revealed in an official report by Ibrahim that were already being probed by Maldives' authorities.
The "Stealing Paradise" documentary, by Al Jazeera journalist Will Jordon, a former editor of the Maldives Independent, shows what it says are leaked messages from former vice-president Ahmed Adeeb's phone to various officials discussing payments.
In June, Adeeb was jailed for 15 years on a charge of plotting to assassinate Yameen -- part of a sweeping crackdown on opponents, most of whom are in jail or exile.
The Maldives last week issued an arrest warrant for Nasheed for failing to return to the nation to complete his jail sentence after receiving medical care in Britain.