Actually I missed this thought the first time around.
Is the 'missing' code actually REQUIRED for what we anticipate the aircraft's role to be?
There is masses of code in modern aircraft that has been left after development, some is for BIT checks/ maintenance reports etc etc. Some is for future functionality and so on. It does seem reasonable that some of it is kept confidential if not actually required.
We sold stuff to the Saudis which wasn't as capable as the RAF hardware, was there screaming and gnashing of teeth then? We were quite happy to take their money or oil chits.
Car manufacturers have lots of access codes to get 'inside' your engine management system and other equipment. They tend not to advertise how to access those - and nobody says a dicky bird.
Perhaps this is just one more storm in a teacup, stirred by moral entrepreneurs.