Yes, assuming I'm reading you correctly. We'll make it so there isn't a launch post and a job ad on the front page at the same time, once I get time to write some code—that way there won't be any more slots reserved for YC than before (i.e. one at a time). Since launches are more broadly interesting than job ads, this feels like a win-win.
They'll still have voting and commenting like regular stories.
Edit (2020): in the end, I didn't get around to writing that code and users didn't turn out to mind the occasional case where a launch ad and a job ad are on the front page at the same time. If it becomes an issue at some point, we can still implement that bit.