I don't believe in prayer, but if there's ANYTHING I can do for you, I'm here.

I guess I would have done the same thing, it all depends how bad off she was, if she was dying I would have given in cause if I loved her , and she on her way out and it would have made her feel better ,so what. But if she was just wineing and complaining a bout her boreing ass then I would given her the hard love and told her just what I thought, its all about being part of the solution and not part of the problem, but that's a tough one?

I'd just tell her you don't think praying will help, but you want to help her in any tangible way you can. Then ask what you can DO for her to help. I hope this helps.

Ill be there for you but I don't prey

My response is very concise, " I hope it turns out well ".
The gist is to show empathy.

Do things instead, give her a ride, help in whatever way you can, just be there . . .
Actions speak louder than prayers

Awe everyone here is so nice! I like that, and I agree. It is a tough time for her, confirming your care and support for her is best.

“You’re in my thoughts”

I say that I will keep them in my thoughts....

I would have lied and said I would.

Just make it what she want.. Not beacouse u belive or not.. just because she its impirtenant for you..!

You are in my thoughts

If it makes her feel good to hear you say you will, id tell her I will or have as she needed to hear.
That's not in anyway betraying your beliefs but comforting a friend.

If she knows you are agnostic or atheist, this is a form of emotional blackmail. I would offer what help I can but not succumb to praying.

Skirt the issue by asking if you can help in any way at the physical level.