I've created a site collection at :
- mycompany.net(publishing portal template)
Then I've created 2 sub sites:
- mycompany.net/team(using team site template)
- mycompany.net/learn(using enterprise template)
After setting my custom .master for mycompany.net, the Learn Site inherited this custom MasterPage, but the Team Site doesn't. I noticed that by default we can't create the Team Site as a sub site of mycompany.net because it's using the publishing portal template. I've modified the "Pagelayout and site template" setting to add Team Site to the list sub site of mycompany.net" .