Lets say I am working on a project with 2 other people and there is some information that I need to work, so Can I ask like this:
Can you please tell me “How am I supposed to run this script?”.
Can you please tell me “How do I run this script?”.
What I am trying to ask is whether replacing do with supposed to makes the question rude?
Because usually it is used in a expression like this:
How am I supposed to know you don’t like something
I’m not quite sure why OP is asking, since he seems to know the answer anyway.
You don’t normally ask How am I supposed to do X? in a genuine spirit of enquiry, because it’s pretty much the direct equivalent of How do you expect me to do X?. These forms are invariably used in hostile/beligerent/uncooperative contexts.
OP’s How do/can I do X? is the “standard” form, but if you want to be a bit more deferential/polite, you can always ask How should I do X?