I don't think the Reflashing Android Firmware is what he's mainly looking at resolving here.
No, he wants to be able to flash to internal.
For whatever reason, the script was interrupted resulting in a box left with abnormal setup / layout or whatever you want to call it.
Therefore he must return the box to a 'normal' layout in order to start the installtointernal procedure again or run from the sd card (which "Everything went just fine, system runs perfectly from SD.")
So he would need a compatible Android FW that he can flash in order to 'reset' the box
If the X96 FW is compatible then maybe LE will 'take' better than it did from the original FW (who knows?)