For the USB 3.0 to the SSD drive I removed the stacked usb port and added small jumpers to a USB 3.0 breakout. The breakout then goes to a right angle USB 3.0 cable. The wiring is right to left with the red wire on the right being pin 1 (VBUS).
You can also see how I highjacked the USB 2.0 port. The usb 2.0 stack was removed and the data +/- pins we're carefully lifted and soldered to some prototyping wire (30AWG). It was then very carefully re-soldered into place.