Which Japanese aircraft carrier sunk at the Battle of Midway?

All four were sunk.

A:

In one of the most famous battles during WW2, Midway, the Imperial Japanese Navy lost four carriers total. They were: (in the order of destruction) The Kaga, Akagi, Soryu and much later in the day, the Hiryu. The first three were left ablazed, later to be scuttled by the Japanese. The Hiryu was sunk by US Navy planes.

The US lost the Yorktown after two successful attacks by the Japanese. The first of the attacks was as the Japanese thought, the Yorktown, but the damage control teams were able to repair and bring her back on line within an hour after the first attack so when the Japanese's second wave arrived, they found the Yorktown fully operational, and thought they were attacking her sister ship, the Enterprise. After this attack, the Yorktown developed a 26 degree list, and it was abandoned. Later, there was an attempt, and a close one at that, to re-board her to attempt to recover her. The repair party had performed a miracle in that she started to return to her normal set in the water. That was when a Japanese sub fired 4 torpedoes, one hitting a destroyer, the USS Hammann amidships causing her to split in half and sinking in less than a minute. One went under the Yorktown's hull missing, and the last two striking her in the aft. She still stayed afloat through the night and another attempt was in the makings to try to repair her yet again, but in the following morning, she rolled over on her side and sank.

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But to answer your question, ALL four were sunk.