When the 79th Tony Awards revealed its list of contenders on Tuesday morning , there were expected nominations for the likes of John Lithgow (“Giant”), Nathan Lane (“Death of a Salesman”) and Joshua Henry (“Ragtime”), as well as plenty of notable omissions. (How does Lea Michele still not have a single Tony nomination? What’s a girl gotta do?) In case you didn’t want to wake up early along with the Broadway community, we’re breaking down all the twists and turns, snubs and surprises from this year’s nominees. Popular on Variety SURPRISE: Scott Rudin scores two nominations This season marked a major comeback for Rudin, the controversial producer who stepped back from Broadway in 2021 following  numerous allegations of abusive behavior  with employees.…