The 22-year-old Deceuninck-Quick Step sprinter took the win ahead of overall leader Bennett (BORA-hansgrohe) and Dimension Data's Mark Cavendish who finished at third place at the end of the 122.6km stage from Çanakkale to Edremit.
“I was a bit far back going into the final kilometre, but I remained calm and confident," Jakobsen said. "Max [Richeze] started his lead-out 400 metres from home and I left it late, because of the headwind.
"I got a little bit close to the barrier, as the wind was coming from the left, and a flag got caught in my shifter, but fortunately without any consequences, and I could finish off my team’s amazing work.”
Australian sprinter Caleb Ewan (Lotto Soudal) was poorly positioned in the finale and had to settle for fourth.
After winning the first two stages, Bennett retains the overall lead ahead of team-mate Felix Grobschartner and Jhonatan Restrepo (Manzana Postobon).
“The finale was a bit chaotic, but also hard and tricky due to the headwind," Bennett said. "The guys did a really good job today and I am sorry that I couldn’t finish it off, but Deceuninck-Quick Step was stronger today.
"Of course, a win would have been great, but I just hadn’t the legs in today’s finale. But I will try it tomorrow again.”