A Tunisian-based airline crew was convicted in Italy of manslaughter following a crash-landing in the sea in 2005.  The news has capitalized on the story about the captain abandoning control to his co-pilot and then praying rather than executing appropriate emergency procedures.  Notably, though, the co-pilot was also convicted of the same offense and given the same sentence, though there is no allegation he did the same thing.

Even so, any concern would not be on the fact that he prayed, but on the fact that he ceased taking the proper actions to ensure the safety of his aircraft and its passengers.