Any 2-bit attorney could blow this false premise out of the water in court and prove with a preponderance of the evidence that the real reason was her religion.
Oh?? There's not a whole lot of evidence detailed in the story at all. IF you could get enough evidence that that was the case (possible but if so it's missing from the story) then the "2-bit attorny" would have a chance. If not then the employee has no case.
Most employment (especially in small companies) is "at-will" - if you don't abide by company policies while at work, you can be terminated without recourse. If you admit violating those policies, proving that the real reason was religious becomes very problematic.
Look, I agree she was in all liklihood treated very shabbily - but that isn't a Federal crime. However if the law worked any other way it would be impossible for small business owners to ever feel safe employing anyone.