Splitting the lettuce and tomatoes also lets you feed each crop to suit its needs. University of Minnesota Extension recommends separate containers for them because their nutrient needs differ.
For the tomato side, I'd check the seed packet's full-grown height and width against the space under the raised light. The number of pod holes can be more than the number of full-grown plants that fit, so I'd leave some empty if the plants need the room.
Which tomato variety are you planning to try in the iDOO?
The Extension guide covers crop choice, plant size and feeds:
https://extension.umn.edu/how/small-scale-hydroponics