The 17-year-old's decomposed remains were discovered in Cumbria in February 2004 after she disappeared from her home in Warrington, Cheshire, in September 2003.
South Cumbria coroner Ian Smith later recorded a verdict of unlawful killing.
A pathologist stated she was likely to have been smothered or strangled.
Cheshire Police said today the teenager's father, Iftikhar, 51, and mother Farzana, 48, have been charged with murder. They appeared at Halton Magistrates' Court, in Runcorn, today.
The couple have always denied any involvement in their daughter's death.
Shafilea was taking A-levels at sixth-form college and wanted to become a solicitor when she died.
The couple appeared in the dock and spoke only to confirm their names and addresses.
The case was adjourned for a bail hearing at Manchester Crown Court on Friday where they will appear via video link for a bail hearing.
They were remanded in custody. Read More