But does anyone know if Galahut's Missing Unique Armor/Clothing or his Missing Unique Weapons is included in this FOOK2?
And does FOOK2 change vanilla unique weapons, as I would like to use DragonTamer's UWWUT mod (I know, I know...I'm not supposed to use ANYTHING along with FOOK2 Beta).
I don't think Galuhut's mod is specifically included, but I believe most or all of the unused vanilla items are added somewhere in-game by FOOK2.
Currently, none of the vanilla unique meshes are changed by FOOK2, unless you use the EVE addon in which case Smuggler's End will be a Wattz 1000 Laser Pistol (with improved textures I believe) and A3-21's Plasma Rifle will be the http://www.fallout3nexus.com/downloads/images/8340-5-1249739448.jpg. So you could use UWWUT, but unless Drag0ntamer or someone else has made a FOOK2 version, the uniques stats won't be balanced with the rest of FOOK2.
Recently installed FOOK2 with Patch ver 1.3 from FOOK ver. 1.5 (probaly might be the cause of my problem), I using Phalanx and some of my companons and my gear have been removed out of their and my possesions'. For example, my Dan Wesson Pistol is now gone, I found a another tab on FOOK2's nexus page that dealt with item codes, I tried player.additem fk040305 1 100 and it couldn't find the object's id. So I'll guess my problem is more in the ways of the fundamentals of using console commands to add items, or not, but I want to be sure of how to add back my group's items from my previous FOOK.
FOOK2 is not an upgrade from previous versions. You should remove all previous FOOK 1.x files, although leaving them there won't cause any problems - unless you're still loading any old ESM/ESP files which most certainly WILL cause problems. I don't know if there are any compatibility issues using Phalanx with FOOK2, although I'd like to find out sometime because it's a great mod and I'd like for people to be able to use it alongside FOOK2.
As for getting old items back, there are instructions at the top of the itemcode lists explaining how to use them, but I think you'll find the God Containers much more convenient. When in-game, press the '=' hotkey to bring up the FOOK2 Test Options menu, and select "God Containers". The rest should be self-explanatory.