Gonzales started his professional career with Sabah during the 2003 Malaysian League by making his debut against Terengganu. He was part of the squad that finished as runners-up in the 2003 Malaysia Cup. He also represented the Malaysia youth team for 2001 Asian School Championship in Kuala Lumpur where Malaysia finished third and the 2004 AFC Youth Championship.
Sabah
During the 2007–08 season, Gonzales scored 13 goals to become Sabah's all season top scorer with André Scotti Ossemer. His performances earned him a call-up for national under 23 preparation for 2007 SEA Games. He however failed to earn a place in the squad.
For the 2009 season, Gonzales joined a team based in Brunei, DPMM. However, DPMM had to pull out of Malaysia Super League 2009 due to their suspension from the league in late November for not complying with the Registrar of Societies rules.
PLUS F.C.
He later sign for PLUS F.C.. He made his debut against Terengganu and scored a spectacular 25-meter goal.
Sabah
Due to an injury in mid-season, he missed half of Super League season and only made his return in the Malaysia Cup. After the season ended, he returned to Sabah and joined the state team for 2010 Malaysian League season. He was dropped from the Sabah squad at the end of the league season.
For the 2011 Malaysia Premier League season, he joined Sarawak. After a superb season with Sarawak, where he helped the team to second place in Premier League and win promotion to 2012 Super League Malaysia by scoring 16 league goals, he left the team and returned to Sabah for the next season.
From Sarawak to Sabah 2012 Season
On 5 December 2011, Gonzales returned to Sabah at the end of the season having made 21 appearances with Sarawak's, as he helped Sarawak promote the Malaysian Super League. He made his Malaysia Super League debut on 10 January 2012 against Felda United in a 2–0 away defeat. On 14 January, Gonzales scored a goal in 45th minutes of first half against former club Sarawak in a 2–1 win at the Likas Stadium. Gonzales scored his last goal in the 2012 season in a 3–1 win against Negeri Sembilan. He finished the season with two league goals in 9 games.
After only one season with Sabah, Sarawak confirmed that Gonzales would join the club on 4 November 2012 from Sarawak on a free transfer with only performance-related incentives due to Sabah, after agreeing on terms and signing a long-term contract. Bobby's contract is worth RM24K net per year and was given the number 9 shirt, the same number he wore for Sarawak during his first spell. On 7 January, Gonzales made his debut return for Sarawak in the 2–1 league opening game win against Perlis at Kangar Stadium. Four days later on 11 January, he scored double in the 30th minute in a 5–0 home win against UITM FC. On 14 January, he scored in the 45th minute in a 1–1 away draw against Putrajaya SPA F.C.. On 25 January, he scored two second-half goals in Sarawak's 3–0 Malaysia FA Cup first round victory against Malacca at Sarawak State Stadium, but he was denied a hat-trick in the last minute half by a save by Malacca FA goalkeeper Nor Iman. Bobby's brace against Malacca made him the finest poacher player since Alistair Edwards to hit the two-goal mark for Sarawak. On 26 April, Gonzales was the toast of his team after having scored four goals for the Crocs in their Malaysia Premier League match against UiTM in away win 3–5 held at UiTM Stadium. He scored a third consecutive brace at Sarawak State Stadium in a 7–0 home win against NS Betaria FC. On 4 May, bringing his tally to 17 goals in 18 games. This made him Sarawak's most prolific goals per game scorer of all time ahead of Sarawak legend John Hunter. On 21 May, he scored his 19th goal in 19 appearances for Sarawak against Pos Malaysia FC in a 2–0 away win. In the final league match on 5 July, Bobby scores his first derby goal against his hometown Sabah at Likas Stadium with 2–1 win as he helped the Sarawak ended the 2013 Premier League as the unbeaten champions. On 31 August, Bobby Gonzales scored his two goals for Sarawak in a 4–0 win in the Malaysia Cup of group D. He scored his fourth goal of the Group D at home to Perak on Saturday by trashing 6–1 victory on 21 September. On 26 October 2013, Bobby scored in Sarawak Malaysia Cup semi-final second leg against Pahang, though his side went out 4–2 on aggregate.
After released by Sarawak at the end of 2013, Bobby joined PDRM on a 1-year contract.
Perak
Gonzales has joined Perak on a 1-year contract and will be playing on 2015
International career
Gonzales received a call-up to play for Malaysia's national team in early November 2013, due to his good performances for Sarawak in the 2013 Malaysia Cup. He received the call-up along with his Sarawak teammate Hairol Mokhtar by national coach K. Rajagopal for a friendly match against Kuwait in Kuwait City. He played his first game for the national team against the Philippines on the first of March 2014.
