K1 has nothing to do with removal of conditions. ROC has to be done by many immigrants who never had a K1. It is an administrative process, not a court case; no one is found guilty. US citizens are not judged, but immigrants have to remove conditions by providing proper evidence.
You said yourself you do not have traditional evidence of your bonafide marriage, so how do you expect them to validate it, without submitting enough evidence? Clerks, officers, or judges, no matter who handles your file, they are not mind readers.
Again, just submit everything she has. At worst, she files again (and will have more evidence by then).
Best of luck to your wife.