Angry MNS workers burnt effigies of Deputy Chief Minister Ajit pawar and blackened his posters in some parts of the city.
Incidents of stone throwing were also reported from city suburbs including Chembur, Kurla and Bandra, police said.
In Thane's Ambernath, MNS workers attacked NCP office and tried to enforce a bandh today.
However, NCP spokesman Mahesh Tapase, whose office was targeted in Ambernath around midnight, claimed his party workers foiled attempts by MNS men to enforce a bandh.
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Some vehicles were also damaged by MNS supporters.
Suspected NCP workers had hurled stones at Thackeray's convoy at Bhingar in Ahmednagar district and waved black flags last evening when MNS boss had gone there for some party-related work.
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.
Meanwhile, MNS MLA Ram Kadam issued an open threat to NCP leaders and workers if they continued to target Thackeray.
"We know how to give tit for tat. We believe in replying in the language people choose to speak to us. They (NCP leaders) have forgotten that they have to move in Maharashtra.... Their homes are in Mumbai," he said while speaking to a TV news channel.