[JK Spoilers] Question about Kira

I'm new to the game and while I'm mostly trying to avoid spoilers I keep hearing people say they "miss Kira" or that they "Hope they bring Kira back".

I'm only just past Chapter 1 in the Jedi Knight story line, and I'd prefer if someone could answer without spoiling it completely, but is there a mission I need to be aware of to remove any custom gear I have on Kira?

I wouldn't want to lose the couple of cartel items I have on her if he is killed off or removed from part permanently.

Thanks!