Red Queen was indeed working pretty hard on the upgrades of the Obscurus, and she had already completed many updates on the starship to the point where its combat prowess was being increased by around 30%.
At the same time, other aspects of the spaceships were being enhanced like the Shields and the Hyperdrive Engines that were now being adjusted to have some elements of the Warp Engines.
The Red Queen was attempting to create an even more advanced form of the Engine, based on information that was publically available on the Imperial NetSphere and the ExtraNet. As the dutiful Artificial Intelligence, she was working non-stop, though this also resulted in the total lack of Universe Credits.
She was spending the money at a staggering speed on the various materials and things that she needed for the upgrades of the spaceship. He was rather eager to see the Obscurus in real combat after the upgrades.