I redone completely the engine exaust and done something that I think looks a lot better than the old stock stuff.
It now looks a lot more realistic but drinks fuel like crazy, wich is also realistic.
The exaust is animated based on the throttle but retracts almost completely when Afterburner is on.

Controls (same) :

AG 1 : Afterburner
AG 2 : Arresting Hook
AG 5 : Safety Chute
AG 6 : Formation Lights
AG 7 : Nav Lights
Vtol Up : Fold the wings
Vtol Down : Flaps

Checklists (changed a little) :

Take-Off :

Flaps : Full
Wings : Deployed (you actually can't have the wings folded and flaps deployed at the same time)
Thrust : Full
Afterburner : Not Recommended
Pitch : Full Up until in air and climbing
Nav Lights : On

After Take-Off :

Flaps : Rectracted
Thrust : Full
Afterburner : Not Necessary
Landing Gears : Up
Formation Lights : If flying with wingman(s)

Approach :

Flight Speed : ~200mph
Landing Gears : Down
Arresting Hook : Down
Flaps : Full
Afterburner : Off

Final Approach :

Flight Speed : 180-190mph
Landing Gears : Down
Arresting Hook : Down
Flaps : Full
Afterburner : Off
Fly carefully : Don't pitch too low or you will have to increase speed and pull up.