Dramatic irony
It is a dramatic irony that Ama and her people who lived in the Himalayas did not know Lyra's destiny, that Mrs. Coulter was being perused by the church disobedience and that Lord Asriel was waging war against the creator. The irony comes about because Ama and her people are characters in the novel who do not know of the immediate happenings while the readers do.
Situational Irony of Mrs. Coulter killing Sir. Charles
It is ironical that Mrs. Coulter who was a profound member of the church killed Sir Charles, who was her partner in executing the will of the church. The readers would have expected her to be welcoming for the task that they had been given was very tough and they needed to do it together. Instead she deceived him a and killed him by means of poisoning.
Situational Irony that Ama was more afraid of Will than of the bear.
It is ironical that when Ama first met Will who was twelve years of age and Iorek who was the proud king of the bears, she was more afraid of Will. It is against the readers' expectations for one would expect her to be more fearful of the bear that was huge and unwelcoming rather that Will who was of her own age and calm.
Irony that the church forgives sins that have not been committed
It is ironical that the church granted absolution for the sins that someone intended to commit rather than those that the person had committed. A priest was granted forgiveness for killing Lyra before he did it by the leader of the priests. He had repented for it as he was still planning to do it.
Situational Irony that Mrs. Coulter harmed her daughter
It is ironical that Mrs. Coulter who was Lyra's mother would put her under a sleeping spell so that Lyra is not able to achieve her destiny. As a mother, one would have expected her to be caring and encouraging of her child. Mrs. Coulter was the main hindrance to Lyra and Lyra disliked her with a passion.