The 54-year-old, who most recently coached the Essendon Football Club in 2014, will face seven drug charges, including the trafficking of ecstasy and methamphetamines (ice), as well as the possession of illicit substances such as LCD and ecstasy.
Police allege his DNA was on a package that included ice, amphetamines and an LSD tablet.
Police confirmed the charges related to a search warrant that was executed at a Port Melbourne address on January 5.
The man in question will appear at the Melbourne Magistrates' Court on Tuesday afternoon. Windsor faced court in Geelong on Monday to hear charges of trafficking commercial quantities of methamphetamine and ecstasy, among other charges, with police making explosive claims about the ex-coach in the process.
"I don't know where he is and I'm hopeful [he attends], given he was such a significant part of that team".
"A lot of people would be disappointed if they didn't see him at the reunion".
He went on to coach Geelong to two grand final wins in 2007 and 2009, then returned to Essendon as assistant coach under James Hird.
He played in three premierships with the Bombers in an illustrious career at the club, including being skipper of their 1993 triumph.