The hosts showcased their attacking flair and defensive resolve to set up a showdown with Angola, who earlier thrashed Madagascar 4-1.
Coach Vela Khumalo made one tweak to the side that drew 0-0 with Mauritius, recalling Orlando Pirates' midfield maestro Kabelo Dlamini for Vuyo Letlapa.
Bafana wasted no time asserting dominance, striking in the eighth minute when Kamogelo Sebelebele's cross forced Comoros' Idris Mohamed into an own goal.
Six minutes later, Mamelodi Sundowns' Boitumelo Radiopane doubled the lead, latching onto Gape Moralo's through ball and firing off the post for his first tournament goal.
Comoros fought back, with Ibrahim Madi pulling one back on the half-hour mark, cutting in from the back post to drill a low shot past Kaizer Chiefs' goalkeeper Bontle Molefe.
The Coelacanths pressed for an equalizer, but Bafana's defensive unit, led by Stellenbosch FC's stalwarts, held firm. Dlamini nearly restored the two-goal cushion before halftime, his curling effort rattling the upright.
The second half saw Khumalo replace Dlamini and Mduduzi Shabalala with Letlapa and Masindi Nemtajela. Comoros persisted but struggled to breach Bafana's deep-lying defence.
In the 78th minute, Sebelebele sealed the deal, pouncing on a loose pass to fire home from close range to make it 3-1.
Late changes saw SuperSport United's Yanda Mfolozi and Victor Letsoalo replace Puso Dithejane and Radiopane.
Comoros' hopes faded when Naimoudine Assane was sent off in the 80th minute for a second yellow.
Bafana managed the closing stages comfortably, securing their final berth.
Bafana now face Angola on Sunday, aiming to reclaim the COSAFA crown before a passionate home crowd.
Orlando Pirates brought the curtain down on their 2025 campaign in style after dethroning the Carling All-Stars with a deserved 2-0 victory in the Carling Cup final at Moses Mabhida Stadium on Saturday.
Former Bafana Bafana striker Shaun Bartlett believes South Africa may finally have found a player capable of threatening the national team's long-standing goal-scoring records.
Kaizer Chiefs goalkeeper Brandon Petersen remains determined to break into the Bafana Bafana squad, despite his Kaizer Chiefs performances being overlooked.
Bafana Bafana winger Elias Mokwana has opened up about the personal challenges he faced before earning a return to the national team.
