I have a multisite which I use the Multisite Content Copier plugin on. I have noticed that when I am copying content from the post page to a new site it doesn’t copy the custom categories too.
I have all the checkboxes check when I perform this action and yet no categories are selected on the new post that is created.
Images and other post meta data is being transferred OK by the looks of things.
If you require login details for this multisite then please e-mail me direct or provide me with an e-mail for me to provide these to.