If my opponent used Latios GX's "Clear Vision GX" attack on me, could I use Bonnie to allow my Zygarde-GX to use its GX attack?
No, you cannot. Although Bonnie would normally let Zygarde-GX re-use its GX attack, the effect of Clear Vision GX is on Zygarde-GX and that still prevents using *ANY* GX attacks.
Source: TPCi Rules Team (2019-09-05)