I think upcoming T-20 WC might change the tide. If India lose then there are high chance of Shastri getting sacked as no one in BCCI holds favorable opinion about him especially Ganguly and everyone might start thinking beyond Kohli in the limited over cricket.
Kohli is panuti when it comes to big tournaments be it Champions trophy final, Semis of WC and almost every season of IPL.
Ganguly and the other BCCI officials have avoided open confrontation with Kohli, who has a reputation of being short-tempered. So I am not sure there will be any change, even if they perform poorly during the T20 World Cup. Selecting a coach, who doesn't dance to the tunes of Kohli will be huge. Attempts were made earlier, but they were not successful.