Trying to organize iTunes structure so that it is not so messy!

I have been trying to set up on my windows 10 computer with an old itunes library from a older Macbook Pro from like 2012, running OSX 10.6.8. It has a lot of music & playlists I would like to be able to use across all my platforms. ie: Windows / Imac M1 24" / iphone / ipad / ipod. So I copied all my media to an external hard drive along with the iTunes folder etc, etc. Got it set up onto my windows machine using iTunes v12.12.?. I managed to get all the music linked up however they were spread out into the iTunes Media Folder and the Music Folder within the IiTunes Media Folder ( iTunes Folder located on the external hard drive ). So I wanted to attempt to consolidate which it did, however more files were moved into the iTunes Media folder rather than into the Music Folder. ( I truly don't understand how iTunes can think this is more organized ? ) Now what I want to know is if there is a way to structure this so that all my music can be situated into the Music Folder within the iTunes Media Folder and not spread between the two folders? ( This would make iTunes truly organized ) If you have some sort of solution I would be externally grateful for the help. Once I have the structure I want I can then link this to my Apple Music and sync all my Apple devices to it.

I am extremely frustrated and confused and having used iTunes a lot in the past I do not understand why this is so hard to do.