easiest for me is putting GT into unleashed.
download unhinged and unleashed.
open the unleashed "edit mudpack". "add mod" browse to the unhinged folder, you want the folder called gregtechmod. automatically puts it into active mods.
run the unleashed pack, this generates the configs from GT. now you can open up your FTB file location, unleashed, configs, gregtech, and mess around to your hearts content.
portalgun is included. you can ignore thaumcraft for a while if you want. most nodes don't spew wisps.
theres a config over in the support section that fixes BoP ID conflicts.
as for the wiki issue, I use ftbwiki.org because I find it better than the official.
If I wanted to put the Magic Bees mod into the MindCrack pack (which is the one I understand creates Apatine Bees which solves the apatite problem somewhat) is that even possible? Am I allowed to make customizations to modpacks for personal use? Is it at all difficult to add Apatite to the list of items scrapboxes can produce?
On the Thaumcraft issue, it's really hard for me to get going trying to get somewhere when you run into a node that spawns hard to deal with mobs that fly off. That's why I'd prefer a modpack that doesn't have it.