Police lodged two FIRs against MNS activists, arrested six of them and registered some non-cognizable offences in several parts of the metropolis, officials said.
NCP, a coalition partner in the Congress-led government in the state, has denied that its workers were involved in the attack on Thackeray's convoy at Bhingar in Ahmednagar district last evening and dubbed the incident as "stage-managed".
Tension brewed in parts of Mumbai and adjoining Thane districts since the midnight attack on NCP office at Ambernath with MNS trying to enforce a bandh to protest the Bhingar incident.
Incidents of stone throwing were also reported from Khar, Antop Hill, Chembur, Kurla and Bandra, police said.
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Six people were arrested by the Khar police in suburban Mumbai after they vandalized the NCP's office there, while in Antop Hill in Central Mumbai a case of stone pelting was registered against four persons all of whom are absconding.
Bandra police registered a Non-Cognizable offence against MNS workers after they allegedly tore NCP posters. In central suburb of Mulund, 11 people were detained for illegal assembly and sloganeering, police said, adding there was some stone pelting in Vikroli also.
A car and a bus were were also damaged by MNS workers.
Suspected NCP workers had hurled stones at Thackeray's convoy at Bhingar and waved black flags but nobody was injured.
NCP activists were furious at Thackeray's criticism of Pawar, nephew of party supremo Sharad Pawar, whom the MNS leader blamed for the severe drought in several parts of the state.
Thackeray had at a public meeting in Solapur recently attacked Pawar, who headed the water resources ministry between 1999 and 2009, for allegedly having failed to check water scarcity despite huge spendings on irrigation projects.