Asslamo Allaikum, Muhammad Ali Jinnah's Great grand-father was neither a Guji (Indian) nor a Shia. He was a Sunni Muslim from Faisalabad or Sahiwaal (can't remember which one) & I have been meaning to write up something on this subject but this isn't a priority. His whole ancestry is Sunni EXCEPT for when his father married the Gujrati-Biohri women in Bombay, possibly Grand-Father also married into Gujrati-Dawoodi-Bohras (???Not sure but will need to check). I am a bit shaky on his Grand-Father and I think even he was Sunni but most certainly they adopted Shia'ism from the Mother's side and not the Father's side (in line with Dawoodi-Bohra system).