Does it really matter now?
Yes. It does matter.
Both right wing Muslims and Right Wing Hindus want Jinnah to be painted as a Muslim fundamentalist.
From right wing Pakistan's POV this helps in projecting Pakistan as the leader of Ummah and only Muslim nation with a Nuclear bomb. It helps them to continue their continued hatred towards non Muslims of the subcontinent, be it Ahmedias, Hindus, Sikhs etc.
From right wing Hindu POV, this helps build the narrative that Muslims are fundamentalists who are not patriotic towards the nation but towards Islam only.
A decade ago few politicians from Indian right wing party tried to educate the people that Jinnah was secular and they became untouchables in their own parties.