Charles Storey, 44, underwent several interviews before GCHQ eventually turned him down for 'national security reasons' in 2009.
Mr Storey says this is because he told questioners "without doubt, if required to choose between his loyalty to his country and his loyalty to God, [he would] choose his loyalty to God".
A Bristol employment tribunal and another judge have both already rejected the Chess master's claims but now he's taking his allegations to Europe.
He is also alleging that his admission of taking drugs for a short time as a young man could be behind his rejection from the job.
The Honourable Mrs Justice Simler said GCHQ did not reject him on the basis of his devout Christian faith or his admission of drug taking.
It had been reported that Mr Storey is expecting a multi-million pound pay out.
On his blog he is thought to have said: "I am looking forward to recycling my discrimination pay-out of anything up to £5 million into developing Junior Chess through my 'The National Chess Syllabus & Bandana Exam System'."
After the last ruling against him he said: "The whole process has been ridiculous. I've been fighting this for seven years and the next stage is Europe."