It seems like this problem is tied to forcing v-sync off in my graphics card display settings. Doing this allows my game to exceed 60 frames per second.
Not only does this cause the warp drive during scene fades, but it also increases sliding character animation speeds as a whole throughout the game. I was wondering why my character speeds doubled since upgrading...
This isn't the first time that this has caused trouble. In 3.7.1, exceeding 60fps occasionally caused the camera to get stuck in place. I've yet to verify if this is still a problem in 4.2.
So it seems like exceeding 60fps is asking for trouble. The problem is I can't count on players not having v-sync forced off, since many gamers do this to avoid input lag and screen tearing. Does anyone know of a way to set a max framerate without using v-sync?