In short - yes, you can!
There is a feature which will allow organizations to have different applications for each school if needed.
The URL for your organization's SchoolMint site for parents will still be the same, as parents will go through the application flow from the beginning in the same way.
Once they arrive at the "Choose Preferred Schools" page in their application flow, they will then have the opportunity to select the school(s) to which they wish to apply. They will then go on to complete the application(s) for the School(s) which they have selected to apply for.
In order to set up multiple applications for each school, let your SchoolMint representative know 1-2 weeks before you begin accepting applications.