In the past returning opponents have been greeted by large crowds that turned into a slow hours-long procession towards the capital marked by clashes between police and supporters.
Mr Kyagulanyi had been in the United States for medical care following his alleged torture while in custody.
Kyadondo East MP Robert Kyagulanyi has been arrested just moments after he landed at Entebbe International Airport. They are Henry Lubulwa of Uganda Radio Network, Joel Senyonyi of NTV, Diana Kibuuka of CBS FM, Moses Kyeyune and Sirajj Kiberu of KTV, Eve Muggaga of Daily Monitor, Charles Katabalwa of Radio Sapeintia, and Lubwama Johnson of state-owned New Vision.
Police took away Ugandan opposition politician Robert Kyagulanyi as he got off a plane at the country's main airport on Thursday but a police official denied he was under arrest and a government official said he had been taken to his home.
Residents in his neighbourhood told Reuters that they had attempted to wait for him on streets near his home but were chased away by security forces.
The 36-year-old Ssentamu says he is fighting for freedom from oppression and wants longtime President Yoweri Museveni, in power since 1986, to retire.More news: Amazon investigates claims of bribery, review manipulation
The pop star turned opposition firebrand was charged with treason alongside more than 30 others after President Yoweri Museveni's motorcade was stoned by opposition supporters.
The government denies allegations of corruption and of stifling opposition. "Robert Kyagulanyi (Bobo Wine) for easily cooperating with law enforcement officers at Entebbe airport who provided him with a chauffeur driven auto, escorts and traffic clearance to Magere", Opondo said.
The politician, who has pleaded not guilty to the treason charges, said he was beaten with an iron bar in detention in northern Uganda.
"Bobi Wine reached at the airport and as police had noted that it never wanted chaos in town, they [Police] had to escort him up to his place to ensure peace prevails in the city centre", the General said.
Kyagulanyi responded on Twitter writing, "I am a free Ugandan with the right to move freely in my country".
Earlier, several Ugandan journalists from different media houses were blocked from accessing airport.