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Do you have a complete ring of blocks around the multiblock? I remember reading about a problem in some version of Forestry, when you don't have the multiblock completly surrounded.
Doubleclick on your NEI search bar. The yellow bar around means you're in inventory highlight mode, which dims any inventory slot that doesn''t contain your search term.
I think this is by design, I remember reading somewhere (in the buildcraft wiki?) that you're supposed to use the advanced (laser-powered) autocrafting table for non-stackables.
You can use a TiCon axe in a chopper. Last I tried, that didn't work on the wood level, but once I made a stone chopper, a TiCon axe with a stone head worked.
It's called the Ring of Chordata, I think. It also gives a bit better vision underwater, I used it with the simple mariculture snorkel and got good enough vision for my use (though not as good as good as the screenshot above, IIRC).
For now there's not much use apart from decorative flowers. From 0.7 on, you'll need fertilized dirt for agricraft flower seeds and tilled fertilized dirt for all magical crops.
I have a bunch of animals wandering about my base... I forgot that silverwoods brought their own biome with them and now have a small magical forest biome where occasionally something will spawn.