The awards, which were announced Monday, are presented by the 132-member Online Film Critics Society, an international professional association of Internet-based film journalists.
"The Two Towers," the middle installment of J.R.R. Tolkien's fantasy epic, also picked up the best ensemble acting award and technical awards for achievements in editing, sound and visual effects.
"Far From Heaven" won seven awards, including best actress for Julianne Moore, best-supporting actor for Dennis Quaid, best original screenplay for Todd Haynes and honors for cinematography, art direction and Elmer Bernstein's original music score.
Daniel Day-Lewis won the best actor award for "Gangs of New York" and Samantha Morton won the best-supporting actress award for "Minority Report."
The Online Film Critics Society also picked "Bowling for Columbine" as best documentary and Mexico's "Y Tu Mama Tambien" as top foreign-language film.