If other themes used by sections has a front-page.tpl, where do they go?

I'm building a site with multiple sections and each section kind of has a pseudo front page even though they aren't really on the traditional drupal front page. If I include a front-page.tpl.php in my theme that goes to one of these sections, then with the section assigned to the theme have this front page?

I'm just trying to figure out how best to do it. I know i can do multiple templates by using the node id or whatever but it seemed more straight forward if Sections would just read that each assigned theme had a front page......

I hope this make sense. I doubt it's possible but I thought I would ask.

Thanks,
Becky