State Congress unit president Kantilal Bhuria and former Union Minister Suresh Pachouri also covered their head with skull caps while sharing the dais with Chouhan at the Idgah in Bhopal.
Film actor Raza Murad, who was present at the Idgah, appreciated the BJP leader's gesture of putting on a skull cap but at the same time took an indirect swipe at Modi.
However, the actor quipped that it was time that Modi learnt some things from Chouhan and does not show his "aversion" to skull caps.
Modi, the Chief of BJP's Election Campaign Committee, tweeted an 'Eid Mubarak" message, saying, "May everyone in the country be blessed with happiness, peace, prosperity and good health."
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Modi had refused to put on a skull cap offered by a Muslim cleric during his sadbhavana fast in Ahmedabad in September 2011.
In Bihar, Chief Minister Nitish Kumar also wore a skull cap and visited several places to greet people on the occasion and prayed for the progress of the state.
At a prayer at the Gandhi Maidan, the chief minister was given a skull cap which he wore and prayed for prosperity and growth and eradication of poverty in the state. Later, he ate "sewai" with children.
The Chairman of Minority Commission Naushad Ahmad accompanied the leader of the JD(U) which snapped its 17-year-old alliance with BJP in June.
The chief minister paid a visit to Emarat-E-Shariah and met Amir-E-Shariat Hajrat Maulana Nezamuddin and Secretary Maulana Anisurahman Kasmi.