How did you extract the save data? If you used FBI to browse save data, you can literally clone your save data to all three slots.
I just tested it on my end and loaded your save into slots 2 and 3 of my Dark Moon game. it recognized them right away. Directions are as follows:
1) Clone your "profile1.sav" file twice, renaming the copies to "profile2.sav" and "profile3.sav" respectively. (doing this on your computer will work best)
2) place your three profile files in your 3DS SD card (if it's a New 3DS, use wifi transfer).
3) launch FBI
4) select SD, then find the folder with your three profile files.
5) Copy the "profile2.sav" file
6) Go to FBI's Main Menu and select Titles
7) If you have a cartridge version, it should be blue, if it's digital, it's green and somewhere on the list, find "Luigi's Mansion: Dark Moon" and press A
8) Select "Browse Save Data"
9) Select "<current directory>"
10) Paste
11) Repeat steps 4-10 for the "profile3.sav" file
You will then have the folder contain "profile1.sav", "profile2.sav" and "profile3.sav"