Hi irishwill2008,
I tried putting my SD card into the pi 3 but wont boot as different structure i guess?
You are guessing right.
Any ideas how to retrieve the files?
The only chance you have is to read the card on a Linux machine.
For this you can use your RP3 and a USB micro sd card reader.
The card should auto mount and you can access it with SFT program like WinSCP.
Frank