My baby! We had dual stick controls before we saw the Quake port. Which was a little gutting, but if you're going to be beaten to the punch, at least it was iD. I think we might have been aware of the Goldeneye two controller mode, but quite frankly, once we saw the dual analogue sticks, it was utterly obvious. I recall the team took to it fairly quickly. I added mouse support as well, just for the hell of it (which I think the Quake port also had). So no, not the first, but up there, and with excellent company.
I seem to recall there was some debate about supporting the fishing controller.
Also, an unkillable project. Started off as a top down Loaded style shooter on PS, Saturn, and PC. Spent some time as a third person 3d tomb raider in a space ship. Before finally turning into the one thing Fox didn't want us to make, an FPS. Was supposed to launch with the film, then the video, finally ships 3 years late. Longest I've spent on a single project, and I was one of many who didn't survive to the end.