The 29-year-old was allegedly recruited by Ukrainian special services and promised $100,000 and travel to the European Union, said the news agency Tass, citing the country's domestic spy agency, the FSB.
The man was arrested in the village of Chernoye in the Balashikha district of Moscow, the news agency Ria reported, citing interior ministry spokesperson Irina Volk.
Kirillov, the head of the military's chemical, biological and radiological weapons unit, was killed along with his assistant when a bomb hidden in an electric scooter went off as the two men left a building in a residential area in south-east Moscow on Tuesday.
The Kremlin said the Ukrainian "Nazi regime" was behind Kirillov's killing. The Kremlin spokesperson, Dmitry Peskov, said: "We understand who our enemy is and what they are capable of. This once again proves the legitimacy of our actions during the special military operation."
The investigation was "progressing quite effectively", he added.
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