"The situation is now under control and voting is going on smoothly," Special Director General of Police (Law and Order) Navdeep Singh told IANS.
Minor scuffles between the supporters of political parties near few polling booths were also reported.
Long queues were seen early in the morning with voters lining up to beat the heat in this desert state.
Rajasthan has 25 parliamentary constituencies, and in the second and final phase voting is being held in five constituencies of Bharatpur, Dausa, Tonk-Sawai Madhopur, Karauli-Dholpur and Alwar. Of these five seats, the Congress holds four while one is with an Independent.
Union minister Jitendra Singh, who is contesting from Alwar constituency, was among the first to cast his vote.