Paneira started his coaching career in 2002, with
GD Serzedelo of
division four. He also managed his very first club Famalicão, but in the regional leagues. On 16 December 2009, Paneira was named coach of
Boavista FC, with the
2001 league champions now in the
third tier. He was appointed at another side from that league,
C.D. Tondela, on 24 May 2011, leading them to
promotion in the playoffs in his
first season. On 10 June 2012, Paneira signed a one-year contract extension. He was relieved of his duties on 8 November of the following year, leaving the team in
ninth position. In March 2014, Paneira took charge of
Varzim S.C. in the third division. He was fired in early May 2015, after a series of bad results. Paneira returned to Tondela on 30 May 2015, being appointed manager for the club's
first-ever season in the Portuguese top flight. He was dismissed on 6 October, after winning and drawing one each of the first seven games. On 10 April 2023, Paneira returned to work for the first time in over seven years, signing with Varzim until 2025. He was their third manager of the
Liga 3 season, with four games remaining. The team avoided the drop on the final day with a 1–0 win over
AD Fafe. ==Other ventures==