Dear Sir,
We do not support Vivado yet there is many Xililinx literature covering how to migrate an ISE project towards Vivado, you are probably able to find your way through.
About clock region per unit, I believe Xilinx FAE should become handy on this one. Indeed there is big difference between V6 and V7, and you will see V8 is going to be great fun also..
The only firmware we have for VC707-FMC126 is part of the default BSP. We also have the calibration (for 1 and 2 channels mode) package.
Best Regards,
Arnaud