Hi, everyone. Thanks for your input and I will try and address as much as possible

Sue - good pick up about her age being 60, according to Patrick at the inquest. I picked up on that as well and cannot explain it

. If Alice is born in Bathurst and both James and Mary were married in Bathurst and both the records are missing, maybe there's a problem with the Bathurst records with transcription. I might be able to look at the microfilms at the state library of NSW.
Wivenhoe - Robert's birth certificate was prior to registration in Victoria. It only has his name and James and Mary Walsh as parents. Nothing much to go on with the early ones. Good point regarding her literacy, Neale.
I have Alice's death certificate and it lists both James and Mary Walsh as her parents. Would she do this if Mary was a step-parent? I have her inquest file and Mary writes that Alice is her daughter at the inquest into her death:
https://prov.vic.gov.au/archive/A1A8A01B-F1B8-11E9-AE98-154F0CC9566F?image=1However, I will keep what you said in mind about her not being Alice's biological mother.
James Walsh Jr lists his parents as James (farmer) and Mary Murphy on his wedding certificate.
I do not know much about James Sr apart from him being born in Co. Meath but will try news articles in that region. I assumed they were not a wealthy family.