Megue, in the 38th minute, opened the scoring, after a direct free-kick at the entrance of the opponent's great area. Lépua, at 47, extended the marker's march, and Ezequiel Higino, at 75, sentenced the result.
The goal of honor for the Comoros Islands was scored by Alin Nassim, after coming off the bench.
Angola will play again Thursday, for the second round, against the Seychelles Islands, and ends the group stage on Sunday against Botswana.
In the other game in the same group, Botswana beat Seychelles 1-0.
Angola leads the ranking with three points, the same as Botswana.
