Yes that would be best
ie Copy then Paste
No software is required, you copy a data folder, then paste it somewhere else
No software required

I note I had the same issue as you, 2 million programs, and data in just about every location I could put it

All data is now in one location (yes MS got it right, My Documents does work)
And I thought I really don't need all those programs (especially since I use free programs for most everything now)

The only issue is games, what I did was backed up my entire 60Gig of games at the time (I note that Users now could have hundreds of gigs on games alone)
And guess what? I removed the partition(s) (you don't actually need to "format" as such)
Then installed Windows clean. OMG System boost, beyond my wildest dreams