I think it kind of depends on what you want out of it. While I'm still waiting for it to arrive, I ended up going with the Passport. My choice came down to the way I expect to use this vehicle. For me, there were a couple of factors. First, the lack of fold-flat seats in the Toyota. I occasionally sleep at trailheads, and it's nice to be able to roll up late and just sleep in the vehicle. Obviously, you could either build or buy something to deal with the half-foot difference between the cargo floor and seat backs in the 4Runner, but I didn't want to have to deal with putting that in and out of the vehicle and having to store it when not in use.
The other deciding factor for me was the lack of a center differential in the off-road-oriented 4Runners. I live in Colorado, and a lot of our winter driving involves mixed snow, ice, and dry pavement (mountain canyons). I've found part-time 4WD to be a hassle in such situations (you don't want to damage the vehicle by running it in 4WD on dry pavement, but dang, 4WD is sure nice to have on the slick stuff). You can get a center differential in road-oriented 4Runners (e.g., the Limited or the Platinum), but these vehicles come with low-profile wheels and tires that you'll likely want to swap out if you plan on doing much off-roading. Obviously, if you live in the South, this would be a non-issue.
Anyway, just a few things to think about...