I remember being able to see through some walls using an actual cartridge, but definitely not to the extent that are visible in this movie, you're right. So far I haven't tried testing other plugins, but I have made a conscious effort to stay far enough away from most walls when strafing to avoid the "see-through" effect. Whether the run gets encoded with Jabos or not doesn't matter to me at all, but I'm not going to mess with it now, since the walls are emulated correctly, other than close-up views. Thankfully, this game doesn't suffer from desyncing at all, so swapping plugins around after it's all finished shouldn't be too big of an issue.
EDIT: The deathwarp in level 4 is looking like a wash. I did some calculations on the route deviations to see how long various events take, and here's what I came up with:
Getting the grenades in level 4: roughly 3 seconds
From the 2nd key of level 4 to the checkpoint: 11 seconds
Death warp: 4 seconds
Getting the grenades in level 5: roughly 14 seconds
So the current route takes 14 seconds total (3+11). The new route would take at least 15 seconds(14-3+4). With allowing for some errors in measurement, it looks like it would be exactly the same length to slightly faster to keep the current route. However, if I find a way to either wall-jump or wall cannon to the first key in level 4, I'd certainly incorporate the deathwarp since I wouldn't have the opportunity to get the grenade launcher. I'm going to wait a while before continuing to do some more testing, especially the spots nfq mentioned with the wall cannons that may be of use.