It's okay to quit things more than once.

src/SDL.c

@@ -69,8 +69,6 @@ static void
 SDL_PrivateSubsystemRefCountDecr(Uint32 subsystem)
 {
     int subsystem_index = SDL_MostSignificantBitIndex32(subsystem);
-    /* If this assert triggers there is a mismatch between init and quit calls */
-    SDL_assert(SDL_SubsystemRefCount[subsystem_index] > 0);
     if (SDL_SubsystemRefCount[subsystem_index] > 0) {
         --SDL_SubsystemRefCount[subsystem_index];
     }