I know there is mod for some werid texture issues but im wondering if it was ever fixed to work with texture mods and lose files. Say if i have 2k textures which is all lose textures will bethesda hd textures over write them and will they not work still? Do you need to do that skyrim ini edit?

Yes. This was fixed way back with 1.4.

k good im wondering for load order should i always do hd texture packs first?

Im using skyrim unoffical patch and it says put it first in load order after update does that mean ever the texture pack?

BOSS takes care of load order, for the most part.

boss has its flaws though not sure how relible it is when mods author says something else.

It's better to go with BOSS than the mod authors. It's reliability is generally just fine.