If I'm not mistaken, they both alter leveled lists of traders, so it may be a good idea to merge the leveled lists through Wrye Bash. I don't know too much about Wrye Bash, but that may be a solution.
"This mod alters the "VendorGold..." leveled lists that determine merchant base gold. It also alters the "PerkInvestor..." leveled lists. If you are using any other mod that alters these leveled lists then you will need to decide whether to load it before or after Trade & Barter. If Trade & Barter is loaded last, then it will overwrite any changes made by other mods to these leveled lists. If the leveled list changes from Trade & Barter get overwritten, then the merchant gold options & the "Inventory Changes when Invested" will likely not work."
That's from Trade and Barter. Maybe you could just make sure it loads after Skyre?