There are posts confirming the same on nexus forums, loads of mods are not working with the latest patch.
I followed gopher's videos exactly, reinstalled and tried again, the game crashes even without any mods enabled.
Closest I could get is adding a custom weapon to the game but it was invisible, the model and textures were hidden. That was without the .ini tweaks enabled so that it would at least start.
Theres threads about it here:
http://forums.nexusmods.com/index.php?/forum/3495-fallout-4-technical-support/
Was wondering if I should do a thread about it. I just bought the game this weekend on PC and disappointed that mods are broken.