I know I'm nitpicking but is there any way to fix this? It's driving me bonkers.

Look at the arms, specifically. It does to every poly in the game, but this was the easiest to use as an example.
https://www.dropbox.com/s/iyyu3lifat...14%5D.mp4?dl=0

As far as I can tell, it seems the vertices are snapping to coords at a resolution based on the original PSX's resolution of 320x240 / 640x480, despite being run at a higher resolution. PCSX-r supposedly has a "GTE Accuracy" switch that fixes this, but it's bound to PCSX-r and the plugin that adds this nifty feature isn't available in ePSXe.