Just because you use pipe gates, doesn't mean you have to use wooden pipes to pump items.. Use a gate to activate a ME export bus for example.
It would mean twice more stuff near the machine, I love to use the most compact designs we can find, and to hide the ME cables I have to use the BC facades, its nice but since we can't remove them without removing the pipe/ME thing (tried with the wrench, right click, shift right click, shift left click, when I remove the facades the trick that is behind it is removed no matter what, I would try to limit the use of facades, I think I'll try to use itemducts with a servo and redstone signal needed, since with that, I can use covers from Forge Microblocks...