マカッサル海峡
"S-41" returned briefly to Manila for replenishment but departed again on 24 December. Into the new year, 1942, she patrolled off the Lingayen area. On 4 January she retired from Luzon and moved south toward the Netherlands East Indies. By 12 January, she was off Tarakan; by 15 January, Balikpapan; and by 25 January, after patrolling Makassar Strait, she was at Soerabaja. On 4 February, she departed that north Java base and returned to Makassar Strait. Thirteen days later, she torpedoed a Japanese transport off Cape Mangkalihat and was credited with a kill by the American-British-Dutch-Australian Command (ABDA).