Happy to help you with your issue.
Confluence has two types of templates. Space templates, which are only available for a specific space, and global templates, which can be used in any space. See Blueprints and User Created Templates for more information.
For your issue, as I understand it, you are either having one of these issues:
Can you clarify which one you mean?
If your users are creating templates from the wrong space, then you will want to correct your users and let them know where exactly they should be saving their templates.
If your users are creating pages from templates in the wrong space, then you will want to make sure the template is not a global template, but a space template. This would ensure the space created from the template goes into the correct space.
Another option would be to use the Create from Template Macro. This allows you to embed a button on a page that allows a user to create a page from a specific template and will create a directory of pages for you to easily reference later.
I hope that helps, but do let me know if you have any questions about this.