Mamelodi Sundowns and Orlando Pirates will battle it out for the new-look Wafa Wafa trophy at the Moses Mabhida Stadium on October 7.
Despite losing the game 1-0 on Sunday to make it 2-2 on aggregate, Pirates advanced to the final through an away-goal rule.
This after they managed two goals away from home during their first leg in Cape Town early in September.
Bucs coach Jose Riveiro made a couple of changes in his starting line-up, which saw Siphelo Baloni get his second consecutive start.
Stellenbosch had the first sniff at goal when striker Iqraam Rayners came close to scoring when his effort from close range was saved by goalkeeper Sipho Chaine after a pass from Sihle Nduli.
It did not take long for Rayners to make up for missed opportunity when he fired Stellies into the lead in the 21st minute after his well-worked volley from outside of the box took a deflection on Zakhele Lepasa and found its way to the back of the net.
Moments later, the home side searched for a quick response, and captain of the day Thapelo Xoki found himself unmarked inside the box and was close to getting an equaliser.
However, his bullet header from a corner kick went wide.
Namibian international Deon Hotto also had a chance to level the score, but his free-kick from the edge of the box was saved by Stellies keeper Sage Stephens.
At the stroke of half-time, the visitors almost extended their lead through Devin Titus, when he fired a snapshot from range, but Chaine was equal to the task.
Bucs came out guns blazing in the second stanza.
The introduction of Lesedi Kapinga, Miguel Timm and Bandile Shandu brought some extra spark and changed the complexion of the game.
Both sides kept on pushing to get a cushion goal.
Stellies were desperate to get the second goal to take the game to penalties, but it was not meant to be, as their efforts were not enough to advance to their first ever cup final.
The Sea Robbers will now have a monumental task to defend their title against DStv Premiership champions Sundowns.
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