Conscience the greater God?

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Let us say that you were brought up in one of the three main monotheisms and one day you were confronted by a dilemma that left you with one of two choices that you had to make. To follow one choice would be to obey God's professed law* but to choose the other path would be to follow your conscience, which would contradict God's ostensible law. You decide to use your conscience over God. What does that tell you?

Could it mean that conscience, sincerely followed, is a greater 'God' than the traditional Gods that have come down to us through the thoughts of fallible men who were not, as some claim, divinely inspired? Or could it be that the three monotheisms have got the God concept wrong and that Apollonius of Tyana, a philosopher contemporary of Christ, got it right, or nearly so, when he averred that God requires no worship and answers no prayers? Or could it be that all followers of the three great monotheisms have got everything wrong about God concepts because such concepts are already being eroded with the passage of time? Evidently, the traditional Gods are dying.

*An example would be the commandment in Exodus 22, v18: "Thou shalt not suffer a witch to live." Now while this KJ translation may be mistranslation it was still used to justify many witch burnings in the Middle Ages. So if you came across such a burning about to take place today (homosexuals in benighted countries like Uganda are still being murdered today for their sexual inclinations) would you be guided by the ostensible God of the Bible or your conscience? Speaking for myself, if I came across such a scene I would try to interpose my body and embrace her, especially if she could give me the winner for the next Derby.