Bonaventure wasted little time in sending the home fans to ecstasy at the Jan Breydel Stadion.
The 20-year-old opened his goal account for the season after combining with Hans Vanaken to break the deadlock in the third minute.
Moments later, Musona who joined Anderlecht from Oostende this summer broke his duck to draw the visitors levelled in the 19th minute.
The encounter was decided before half-time with Vanaken's effort in the 43rd minute.
Bonaventure was on parade from start from finish to finish as the Blue-Black extended their unbeaten streak to five league matches this campaign.
Musona was replaced in 65th minute. The former Kaizer Chiefs star has made five league appearances for Anderlecht - four wins and a defeat.
Next on Club Brugge's schedule is a league visit to Zulte-Waregem on August 31 while Hein Vanhaezebrouck's side host Royal Antwerp on September 2.