Using digital mode.
I had actually assumed that the options for digital/analog/guncon mode were just for touchscreen controls and didn't have an effect when using an external controller.
And I'm using blutooth.
I've just tested with Wipeout 2097/XL and the same thing happened there.
Just thought I'd try switching around L1<->L2 and R1<->R2... This is interesting. The problem seems to be with the L2/R2 + left/right buttons... I think my controller is fine, I'm just going to check further into the sixaxis controller software as this makes me think the problem is outside of FPSE.
Well I force stopped and cleared the data for the sixaxis software, set everything back up... No difference. I'll just try installing fpse from google play as I didn't notice this problem earlier, though I wasn't play games that required this button combination..