I would go for the lower mileage one. It has a roof rack which comes in handy sometimes (christmas tree

) Also has leather! Power seats are more of a bother I think, I guess I'm too impatient for how slow they are to adjust. I am sure the appearance of the 01 is just dirt? or you wouldn't even consider it? Just get it professionally detailed.
I am not sure about the 4wd options, my 4runner had 2wd, 4hi, n, 4lo. But it did not have the pushbutton 4wd.
Remotes are easy to come by on
ebay and easy to program. I barely used my cargo cover at all. If you really wanted one I see them for sale frequently on
ebay and on the classifieds section of
YotaTech. Make sure you know what type you are looking for. Some years had square mounts and some had circular mounts.
I can see how the color can be tempting though, that Desert Sand color is awesome, and it looks great with the two-tone.