Deep Space Kraken

The Deep Space Kraken is a bug in the game that is experienced in deep space. It is an error with the games physics engine, PhysX, which attacks spaceships as their velocity increases. The number of parts in your ship has a large effect on what speed the Kraken Manifests itself, as well as how much it affects your ship. It primarily causes your craft to go off trajectory due to forces that shouldn't be there.

The cause of this bug is extreme velocity; the bug subtly exists even in Kerbin orbit. It is mostly only noticeably experienced in Kerbol orbit, however, due to velocity you "gain" when you transition SOI to Kerbol. A fix is planned for this in .17 [1], involving offloading velocity to the universe around you meaning that the focused vessel will always be at a somewhat low speed.