Choudary and another man were charged following arrests last week.
Anjem Choudary has been charged with terrorism-related offences.
The 56-year-old Pakistani-born lawyer is charged with directing a terrorist organisation, membership of a proscribed organisation and calling for support for an organisation proscribed under terrorism legislation.
Anjem Choudary was arrested in east London on 17 July as part of an ongoing investigation into an unnamed terrorist organisation.
They also arrested another man, Khaled Hussein, 28, from Canada, at Heathrow Airport in west London on the same day. He too has been charged with membership of a banned organisation.
Both men have been remanded in custody pending their appearance at Westminster Magistrates Court on Monday.
"On Monday, 17 July, Met counter terrorism detectives investigating alleged membership of a proscribed organisation arrested a 56-year-old man in east London and a 28-year-old Canadian national at Heathrow Airport, after he arrived on a flight," the Metropolitan Police said in a statement.
"They were held under section 41 of the Terrorism Act 2000 and detectives were granted warrants of further detention allowing them to detain the men until Monday, 24 July. Both men have been remanded in custody to appear at Westminster Magistrates' Court on Monday, 24 July," it added.