Verrrry annoying. Missed a million captures this way. It also seems like aerocaptures are less effective than in single player. Perhaps because the warp rate is being forced to 1.5x and stopping atmospheric effects on a vessel? just a thought, as for not dropping you out of warp, that's assured.

I haven't actually noticed this one yet - KSP has always dropped my vessel out of warp unless I'm going on max warp skimming the planet, which is a single player bug.

I believe this is KSP's weirdness. On a high enough warp you can warp straight through planets even with a PE through the ground.

The 1.5x may make it worse however :-/.