Testing this on the Advanced Infusing Factory. I attempted to insert enriched redstone into the factory, and set both items and infuse types to the left side of the machine. Neither way could I get the enriched redstone into the machine.

Apologies if this is intended behavior, but I figured if not, it was worth bringing attention to it.

Using:
Forge 32.0.70
Mekanism 10.0.2

I believe items have a configuration type called "extra" which is where you insert infusion items from.

Edit: Ya setting the side config to "Extra" I am able to have it properly insert into the advanced infusion factory. So I am going to go ahead and close this.