You land in Prague and immediately get into a tense conversation with Miller. If you have the evidence that Rucker gave you, it’s possible to either give it to him or save it for Vega. That’s your call. Once that’s done, you get to split off and explore Prague again, during the evening hours. Think about getting some of your own investigations done, but head to TF29 when you want to continue the main story.
There are two main story missions to look into right now. They can be completed in any order.