I think these lyrics can be taken a few ways depending on your stance.
"When he comes to me, I am ready
I'll wash his feet with my hair if he needs
Forgive him when his tongue lies through his brain
Even after three times, he betrays me"
This could be taken as she elevates Judas to Jesus level, as it was originally Jesus that had his feet washed by a woman, with her hair. Or it could be taken as Lady Gaga is talking about herself as if she is Jesus, as Jesus also washed others feet, he forgives people even when they sin, and Jesus was betrayed three times by his disciples.
You could consider this extremely blasphemous and inflammatory or as a metaphor for a relationship. She is the good one who gives "Judas" everything, despite how he treats her and she always ends up forgiving him.
"I'll bring him down, bring him down, down
A king with no crown, king with no crown"
This could refer to how her lover acts towards her, he acts controlling, regal etc, like a king. But he has no right to as he has "no crown". Or if you want to look at it in a darker way she could be talking about Jesus himself. Even though is is "King of Kings", he doesn't have a crown or anything in the way we would expect Kings to have as he is a King in a completely different way to earthly kings.
"I'm just a Holy fool, oh baby he's so cruel
But I'm still in love with Judas, baby
I'm just a Holy fool, oh baby he's so cruel
But I'm still in love with Judas, baby"
This could be referring to a relationship of hers, despite her partners cruelty she is still in love with him. Even though she knows that she's stupid for feeling this way about him. Or it could be in a more religious sense. Even though Judas is supposed to be a person that was abhorred, she can't help but be a fool in the eyes of religion ("Holy fool") and chose to love Judas instead. This is despite her realising that, that isn't the way it should be. "I'm STILL in love with Judas, baby"...still in love with him despite knowing otherwise.
Like I said you could take that verse literally or as a metaphor for her relationship.
"I couldn't love a man so purely
Even darkness forgave his crooked way
I've learned love is like a brick, you can
Build a house or sink a dead body
I'll bring him down, bring him down, down
A king with no crown, king with no crown"
This verse is ironic as "pure" is something often associated with Jesus and someones relationship with him. But here she talks about how she loves Judas so "purely". She could be describing how perfect her love is for her person.
She then says how even the "bad side" forgave Judas's ways.
She is saying that love can go two ways. It can either be a good thing "build a house" or it can be a bad thing "sink a dead body"
"In the most Biblical sense,
I am beyond repentance
Fame hooker, prostitute wench, vomits her mind
But in the cultural sense
I just speak in future tense
Judas kiss me if offensed,
Or wear ear condom next time"
I was a bit unsure about this verse but I think I've got it. She is saying in the biblical sense she can't be helped. She is a "hooker" for fame. She sells herself in return for fame, she prostitutes herself in this way and says whatever is on her mind, sometimes in a violent way that she hasn't properly thought through. In a biblical sense she is not a "good" person. But in a cultural sense she is just modern day and with the times. Not old like the Bible. Either that or she is speaking of what will come in the future. She doesn't fit in with the Bible because of what she says and the way she is, but this is the future. She then is saying to either kiss her if offensed or to protect yourself from her words next time. She could be saying this to people in general or to her lover.
"I wanna love you,
But something's pulling me away from you
Jesus is my virtue,
Judas is the demon I cling to
I cling to"
Jesus is her example of moral excellence that's tries to pull her away from Judas and stop her loving him, but she can't help but cling to Judas and love Judas. This again could be her referring to her relationship or if you want to take more from it, it could be that she knows Jesus is good but she can't help turning to what is bad.