I have resolved this issue. I noticed that the disappearance of the flight plan from the MCDU and the ND coindided with the raising of flaps after takeoff. This prompted me to check my joystick bindings and I realised that I had 'toggle autostart' linked to the same binding as the elevate flaps. Removing the 'toggle autostart' resolved this issue.
I apologise for troubling the forum with this issue