Though he continued his performing career in the 2006 independent film "The Theory of Everything" (2006), Koenig worked increasingly behind the scenes. He wrote, produced and/or directed the shorts "Good Boy" (2003) and "Woman in a Green Dress" and "Instinct vs. Reason" (2004). He worked as an editor on a number of films and was a video producer for the podcast "Never Not Funny" (2006–2010). His final role was in the film "DaZe: Vol. Too — NonSeNse", in post-production at the time of his death, with Koenig portraying the role of Vice Chancellor.