I can see Layers 5 and 6, yes. And no, Low Detail was not turned on.

Do you think it's maybe the MLLE version number? I have 2.9.0.0, the version that was available to download on J2O. Or maybe there's a plugin or something I'm missing. I copied everything in that J2O MLLE folder to my JJ2 directory.

I did notice something odd though. When I go to delete one of the extra layers, it asks if I'm sure I want to delete the contents of the base layer right after it. For example, if Layer 6 is after my extra layer, when I go to delete the extra layer it asks if I'm sure I want to delete the contents of Layer 6. What's even odder is that if I have two extra layers next to each other, the second extra seems to "glue" in this manner to the base layer beyond that, so both Layer 6 and Layer 7. Not sure if this helps but I just noticed it this morning.