I found how to fix it, rather easy to be fair. If you are upgrading the bios and then the EC, make sure that you are getting the right one. Go there for the EC ;
https://www.msi.com/Laptop/support/GT70-2OC.html#down-firmware&Win8.1 .
To know what version to use, DL the MSI Help desk.
Then after flashing the new EC, the key point is to shut down the PC, remove the battery and power cord, press 15 sec on the start button, so the EC memory will erase. Re plug all and restart, everything should work now.