It's been a while since I did this, hopefully I'm not leaving anything out.
The flashes only work manually, which sucks, but it's still better than buying all new flash equipment.
I connected each FlexTT5 pocket wizard to the software. I made sure each one was set to the same channel. Then make sure each Plus III or Mini pocket wizard is set to that channel. (also make sure all the firmware is up to date)
Click on Misc Tab, check "Basic Trigger" this turns them into manual triggers.
Then just set your Nikon Flashes to Manual. Adjust your power manually and you should have reliable flash system.
These work better this way on my sony a6000 than it did on my Nikon D700 with TTL or Manual. I get very few if any false triggers. Very happy that I don't have to buy new equipment.