The Yggdrasill was actually closer to the escape pod, and started moving toward it. Usually the AI would allow Aendri or Ken, its pilots, to decide things; but it knew time was a limiting factor and elected to act of its own accord.
The fact the ship could act independently of its pilot , or even disobey, was impressive, though likely a bit of a shock and scare to the pilot who had just lost control of the ship.
"I see it, Father! Moving to Coordinates! Sorry, Aendri, but I don't know their condition, so time's critical. I'll take my own helm for now, okay?"