Oh what an intriguing (and possibly cheeky) question. Yet another datapad comes out and Ny Ak types a quick series of commands into it.

"Take Huntress. Good space for storage. When finished unloading it will return to the ship here."

Because the Agrii themselves were going to need the ships for their own purposes, and the smaller shuttles assigned to those ships wasn't going to be enough for ferrying Agrii back and forth.