Indian embassy has not questioned the deportations and as you said they REQUESTED THE QATARI AUTHORITIES abt the Dos and Donts.Well thats just a polite way of enquiring about the issue.Being in diplomatic circles for the past 20 years is enough for me to understand what it means.
Now regarding the second issue you told, that the riots in Orissa were a reaction to the conversion efforts,there have been conversions in India before also but no riots were heard of as such.For eg:

1)Nagpur:- The Ist and the biggest mass conversion which the country has ever witnessed, took placed on the 14th day of October 1956. Place Nagpur, Maharashtra, the city where the headquarter of Rastriya Swayamsewak Sangh is situated. About a half a million Dalits said good bye to Hinduism from their life and embraced Budhism under the leadership of the greatest social reformer, the great visionary and the prophet of Dalit emancipation Dr. B.R. Ambedkar.

2) Meenakshipuram:- The significant event of religious conversion took place on Feb 19th 1981 at Meenakshipuram of Kanyakumari District in Tamil Nadu. Where 280 families got converted to Islam. All of these 280 families cited social reasons behind their conversion. These reasons were persecution, ill treatment and humiliation they constantly had to face at the hands of upper caste of Hindus which made their lives miserable and worst than animals.

3) Dulina :- Another significant even t of religious conversion which created a lot of hue and cry in the society took place at Gurgaon, Haryana 2002. This all had happened after a very pathetic incident of burning Five Dalits Alive by a mob of upper caste people in a police station at Dulina in Jhajjar District in Haryana. Police remain silent spectator. Now nothing was left for the families of these massacred Dalits to remain in such a violent and hatred preaching system of faith, where in Dalit have no place. All the five families of massacred Dalits got converted in to Buddhism at Rabidas Mandir, Gurgaon, Haryana on 28th October 2002 under the banner of All India Confederation of SC/ST organization and the Lord Buddha club in the presence of famous film director, All India Christian Council , Jamait Ulma-I Hind and in the presence of Media Persons.

So why target Christians now?