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Well one thing is missing... and that's the key for the locking lugnuts... mine is tie wrapped to the lug wrench with the open end over the plastic nut holding down the tray. But my space is empty like yours. My tire pressure gauge was inside the pouch with the pliers and wrench.
I just checked mine but it's empty too! My lug nut key is there as it was one of the first things I looked for. I am still getting use to driving around without a spare!
I noticed that also when I got my car in 2001, and asked about it at the dealership, and nobody knew anything. My guess is that it is an empty space for something that goes in the Asian or European versions of the car, like the vertical space on the SC400 dash designed for the phone, which never appeared.
In any event, whatever goes there I've never needed.