I'm more surprised that any application can prevent sleep _when you close the lid_.
I can understand the utility behind something like stopping sleep via timeout so a media player can tell the system "hey, they're watching a movie don't turn off even if they don't touch you for a bit".
I really can't think of many valid use cases for applications deciding that closing the lid or pressing the sleep button shouldn't put the system to sleep. Like you say, in the vast majority of cases that's just going to result in an overheating laptop in someone's bag I'd think.
Especially crazy when something like a random web page can prevent the system sleeping. Laptop won't turn off... which of my 70 tabs is it?!
Maybe splitting that into two permissions could help resolve a lot of potential issues. Sure, let lots of things disable the sleep via timeout... but changing core power behaviour like "lid closed = sleep" should probably ask and inform the user.