Comolli said: "I am happy to move on from the club and go back to France for family reasons."
He added: "I am grateful to have been given the opportunity to work at Liverpool. I wish the club all the best for the future."
The announcement was made as Liverpool prepare for their FA Cup semi-final against Everton at Wembley on Saturday.
Liverpool chairman Werner said: "The club needs to move forward and we now have a huge game on Saturday. It is important that everyone joins us in supporting the manager and gets behind Kenny [Dalglish] and the team and focuses on a strong finish to the season."
Principal owner Henry added: "We are grateful for all of Damien's efforts on behalf of Liverpool and wish him all the best for the future."
Following Comolli's departure on Thursday, Dalglish said: "He has been really helpful in every transfer target that we've gone for.
"Everyone who has come into the club since Damien has been here was of my choice.
"Once I made the choice who I wanted, Damien went away and did a fantastic job of bringing them in.
"It's sad to see anyone leave the football club and he goes with my best wishes."
ETA 1: @BenSmithBBC Peter Brukner, head of sports medicine/ science, leaves #LFC. He will almost certainly not be the last to go today.
ETA 2: LFC sack goalkeeper coach John Achterberg, according to TIA
ETA 3: @thisisanfield Reports now that #LFC's in-house lawyer, Natalie Wignall, has become the FOURTH full-time member of staff sacked today.
ETA 4: @BBCSport Johan Cruyff among names being targeted by Liverpool after director of football Damien Comolli departs, BBC understands (no idea how the Beeb/LFC thought up this one)
ETA 5: @stephen1martin Cruyff's accepted a deal in principle.
ETA 6: Cruyff has stepped down from his advisory role at Ajax.
So, er... good morning everyone I guess.