I have a similar issue with my lvl 50 Chiss BH on the Jedi Covenant server. When I use the unify color tab, the TT-15A Chestguard normally should turn the armor into a black-red color. However, the War Hero Eliminator's Greaves change into a different color. Instead of changing into black-red, it becomes more of a dark grey/red color. The odd part about it is that it interchanges when I go into different areas of the game (i.e. warzones, planets, or my ship).
I have two pictures to show the difference:
On my ship:
On the fleet: