Quick update - I've tested all GPIO pins in digital output mode through both Energia and CCS v6.1.1 and All pins are functioning correctly.

I did some minor rework on the layout by fixing an incorrect pin assignment for D0 and D1 (they were swapped in the schematic) and slightly enlarging the LEGO sized mounting holes and removing the through-hole plating. The holes were exactly 4.8 mm and did not allow for tolerance in LEGO manufacturing. The hole on the board were cutting into a few of the LEGO pieces I tried on it.

More peripheral testing to come soon.