The big-hearted move, worth around £100,000, will see three causes supported on each of his former club’s jerseys in the coming campaign.
England captain Kane, 26, obtained approval from the Premier League, EFL and Football Association, before embarking on his generous gesture.
As a result of the deal, a message thanking the frontline heroes in the fight against the coronavirus pandemic will be on the League Two club’s home shirts, while the Haven House Children’s Hospice will be on the away jersey and Mind, the mental health charity, will appear on the third kit.
Kane joined Orient on loan in 2011 and scored his first goal in a 4-0 victory over Sheffield Wednesday.
‘I was born and brought up only at a couple of miles from the stadium and I am really happy to have the opportunity to give back to the club that gave me my first professional start,’ said Kane.