If the source audio is 5.1 channel and if you export it to stereo, Premiere/Media Encoder crashes at the end of the export. I think this happens with all audio codecs (I tested fdk-aac,aac,ac3,eac3). Changing the video codec or container format doesn't make a difference.
What I have also noticed, if you use fdk-aac and enable low level logging Premiere/Media Encoder crashes instantly at the beginning of the encoding and not at the end, if low level logging is disabled it crashes at the end like the other audio codecs.