I have the exact same problem. She is nowhere to be seen in Chapter 3: Outlander, I've reset everything, replayed chapter 1 and 2 multiple times
At first I had problem because I didn't get HK-55, but that was solved after doing resets/replaying at random. I didn't realise that playing through Chapter 3 without Lana was not how it was supposed to be.
The only missions in my log is this, the Chapter 3, as well as some weekly standard missions. No other chapters.
This is my very first playthrough of KOTFE, just subbed for the first time since release basically. Quite disappointed, because the "free" chapter 1 made me sub. Had no idea it would have continuation problems like this.