One of the first things I did when I bought my '98 was change the diffs/trans fluid. I put Redline MT-90 in, and I did find shifting was a bit easier/less clunky but this is hardly scientific. I had only driven the thing for a few weeks before I changed it out. I would definitely be interested in seeing some sort of comparison, but that hard to come by.
To the OP, 4runner.org has gone up and down like a yo-yo over the past few years. I assume it's cause people like me read the site and don't donate to the hosting costs... But after the first time I noticed it went down I ripped the entire site. I attached a PDF print out of the write up your looking for.