Kowalski, appears along with the CBDC agents who accompany Logan to deliver Syphon Filter related evidence to the USA. En route, Agency jet fighters shoot down the carrier and disengage. In panic, Logan and the CBDC agents jump off the plane and parachute down, all landing on the Colorado mountain. Kowalski, being the unfortunate one, injures his leg and is unable to support his weight. He is forced to rest with two other CBDC agents watching over him.
Soon after it is discovered Angency paratroopers are in the area and a tunnel out is blocked by a paratrooper's attack, Logan is informed by his accompanying agent that Kowalski possesses C4 explosives. Running back to Kowalski's location, Logan recieves a transmission saying: "This is Kowalski, we're under fire- UGH!!".
By the time Logan returns to Kowalski's location, Kowaski and his fellow agents are revealed to be dead. Logan retrieves the C4 from Kowalski's body and leaves.
When shown, he is simply labeled "GI" like the other CBDC agents on the mountain.