First off, if this is your first time seeing Fate of Atlantis, or if perhaps you haven't played it since the 90's, then you might be shocked by the low-rez pixelated nature of the game. You can make out the details of the world, and you have a good idea of what your characters look like, but don't expect high quality sprites or characters that take up a lot of screen real estate similar to later titles like Sam & Max Hit the Road or Day of the Tentacle. However, both Indie and his companion are more-or-less humanoid shapes with distinctive enough clothing to tell them apart (especially given Indie's jacket and fedora).
Even the game's backgrounds and set pieces are pixelated, rough-edged shapes, but considering how many games these days try to recreate that look claiming "retro" graphics, these 1992 visuals might still be appealing to new gamers who don't have the nostalgia factor that I do.
In a similar manner, the game's audio has a good bit of retro or outdated (depending on your perspective) feel to it as well. From my research, it looks like this version of the game is the one that had the audio cleaned up and enhanced (as part of its release on the Wii and Steam back in 2009), but even with the better audio, it feels like the original source was meant to fit on a CD and not a DVD that could allow for a bit less compression. Even so, the music sounds good and has that distinctive Indiana Jones feel to it, while the voice of Indiana himself is close enough to Harrison Ford that it does the trick nicely.