You're not taking variable cam timing into the equation which is why it turns out that way. You have to lock the cam at 0 and then tune in the VVE. With light mods you don't have to worry about the multipliers for the variable cam portion, but anything with a cam still utilizing variable cam timing has to have the multipliers tuned in as well. That requires locking in at different cam positions and getting the multipliers close to maintain the same fuel errors.
I would focus on the idle external load table after dialing in your VVE. That will control decel throttle more than anything.