Rei merged with Lillith, which meant, the end of the
world.
Shinji and Asuka chose suffering, yes 
The rest, instead, had collapsed their AT-fields and relinquished
hold over their solid form giving rise to the unity of all human
souls, e.g. the Human Instrumentality Project. A world of no AT
Fields, a world devoid of individualism. A world where you exist
nowhere, yet everywhere all at once. The beginning and the end are
all one in the same, all's right with the world.