Hokuto no Ken was pretty cool. It's originally from the 80s, but it got many seasons, even as late as 2016 or something like that.

Anime kind of exploded during the late 1990s and early 2000s, there are so many anime made around that time that it's hard to name all the great ones. Among the generally overlooked ones, I really enjoyed Gallery Fake (2005) and Master Keaton (1998).