The next round is likely to unfold after the Supreme Court hearing in the matter scheduled on July 11.
Deputy CM Fadnavis has expressed confidence that the ruling alliance will easily win the House trust as it has 166 MLAs on its side.
Chief Minister Eknath Shinde, who had gone to Goa to fetch them, travelled with them in a special flight.
In a terse letter to Shinde on Thursday, Shiv Sena President Uddhav Thackeray, who quit as Chief Minister on June 29, said: "You have been indulging in anti-party activities and have voluntarily given up your membership of Shiv Sena."
Former CM Uddhav Thackeray and his son and ex-Environment Minister Aditya Thackeray had scrapped the project and shifted it to the Kanjurmarg salt pans site.
The 58-year-old leader who hails from western Maharashtra's Satara district shifted to Thane, a Sena bastion adjacent to Mumbai, in his young days and started his political career in the same city. The four-time MLA, who held the urban development and PWD portfolios in the previous Maha Vikas Aghadi (MVA) government led by Uddhav Thackeray, never hid his humble origins. On the contrary, he made it a point to mention it to underscore how he has been indebted to the Shiv Sena and its founder, late Bal Thackeray for his rise in Maharashtra politics.
The oath-taking ceremony came a day after former Chief Minister Uddhav Thackeray resigned his post in the wake of a major rebellion in the Shiv Sena legislators that led to the collapse of the 31-month-old Maha Vikas Aghadi government.
The cabinet meeting chaired by the beleaguered Chief Minister Uddhav Thackeray also approved the naming of upcoming Navi Mumbai international airport after farmer leader late D B Patil.
Senior advocate Abhishek Manu Singhvi, representing Prabhu, contended before a vacation bench of Justices Surya Kant and J.B. Pardiwala that the Governor is bound to act on the aid and advice of the Council of Ministers.
He expressed confidence that the ruling Maha Vikas Aghadi (MVA) comprising the Sena, NCP and Congress will survive the current crisis.
Sources said the meeting lasted for almost two hours, where every aspect was discussed, like all those camping in Guwahati will stick to their guns and not return to Shiv Sena fold.
In a virtual address to party functionaries, the Shiv Sena president said he was not worried over the defection by MLAs as he considers them "fruits and flowers of a tree which have been blighted by disease".
He called upon the rebels' group to stop communicating on social media or phone messages or letters or statements sitting in Assam, and like "true Shiv Sainiks, show the guts to come to Mumbai".
The plea argued that of late, there is a concerted pan-India effort by political parties to render the provisions of the Tenth Schedule of the Constitution otiose and redundant.
Thackeray said under the present situation, "my own (Shiv Sainiks) don't want me as CM".