One thing I thought about is the fact that maybe Infinite Tsukuyomi isn't necessarily a stronger genjutsu, but maybe it just has a wider range because it is using the Juubi and projecting it off the moon. If this were true it would seem stronger because with everyone in it there is nobody outside of it to wake those affected by it. So, if Infinite Tsukuyomi is just a regular strength genjutsu with a massive range because of the Juubi and the moon, Naruto and Bee should be able to break out of it as if they were under any other genjutsu. Just a thought