MGQ3.04 bob MTL version.rar is the name of the most user friendly. You just need to extract and use the exe file to play the game in full english (some content could be in jap but it's mostly old content or recruit text during fight)
MGQParadox3.04 with mtool(+save+mod.).rar
is the one using mtool. Mtool is a tool you need to launch in order to translate the game in english but it's also a very powerfull cheat engine that let you cheat on lot of thing like xp and items.
It's harder to use but you can look at this post if you want
https://f95zone.to/threads/monster-...-v3-01-torotoro-resistance.1766/post-15329559
I don't recommand to use it for beginner because you need to wait 2-3 mns every time you launch the game before playing and mtool can crash on low end pc and phone.
The other folders are just raw game without translation or bob version without the picture for a smaller download (but you still need to grab the picture from another link)
Finaly 4296300_Chaos_route_guide_final.txt is a guid to play the last part of the game, the famous Chaos route, after you did both monster and angel route during part 3 of the game.