Board Thread:General Discussion/@comment-25176701-20160401201831/@comment-26247132-20160415213016

Lincoln explicitly states in WAG1 that she led the clan and didn't mention anything about her going into hiding until Season Three so she didn't go into hiding after the Conclave because Lexa was Commander for a lot longer than four months.

"Chart a course to the Eastern Sea. There's a clan there, led by a woman called Luna"