The 31-year-old actor, who battled substance abuse since his youth, died from a fatal heroin and alcohol overdose on 13 July. His unexpected death left many fans of the hit musical show wondering what would happen to Cory's character, Finn Hudson.
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Now Fox's Chairman of Entertainment, Kevin Reilly, has confirmed that the special episode — airing on 10 October in memory of Cory — will "deal directly with the incidents involved in Cory's passing and the drug abuse in particular."
Glee creator Ryan Murphy also plans to shoot PSAs — public service announcements — with cast members in character.
"They're going to speak directly to the audience and I think they're going to be very impactful," explained Ryan.
Despite Cory's relapse earlier this year, which forced him to enter rehab in March, Fox's chairman of Entertainment admitted that his tragic death still came as a shock.
"You see some people struggling with addiction and it's clear. Cory was a big, open, wonderful life force. He was not a problem," he said.
Kevin also praised Cory's girlfriend and Glee co-star, Lea Michele, for her professionalism and for being a "pillar of strength" following the ordeal.
"She was the first one to say I want to get back to work," he said.
"First day of Glee today..And at my first wardrobe fitting for Rachel Berry for Season Five! I've missed her so much (heart)," tweeted Lea on Thursday.
Following Cory's untimely death, the 26-year-old kept a low profile while she grieved with Cory's family in Canada, but she did thank fans for their continued support.
"Thank you all for helping me through this time with your enormous love & support. Cory will forever be in my heart," she posted on Twitter on 29 July.
Kevin has also confirmed that all money raised from the music sales from the third episode in honour of Cory would be used to start a fund for the actor.
Glee will continue with production next week and the first episode will air on 26 September.