Can't Open PBR Save File

[Latias4Ever]

I created a save file through Dolphin, it currently works on Dolphin perfectly, but when I try to open it on PKHeX, it just tells me the file isn't supported:

Do I need anything specific for PKHeX to read the file? I simply created the save file on PBR, played on a Colosseum, saved and closed the game before trying this. I'm not sure what I'm doing wrong here.

[Kaphotics]

Can't tell without seeing the save file.

PKHeX requires the checksums to be valid, but I don't believe that's it.

[Latias4Ever]

Ahh, apologies, didn't attach the save file. Here it is: PbrSaveData

[Kaphotics]

I looked through the data and the checksums for the backup fail; it looks like it's uninitalized.

Try saving a few times in-game, restart the console, repeat, then export.

[Latias4Ever]

The save file I sent was after a single save, since then I did another Colosseum and saved a second time, now I did what you said and saved two more times. After that I tried to open the save on PKHeX, and it worked, indeed! I have another question, though, is there any way to enable the Box Storage in PBR since I created this save file on Dolphin and there's no way to connect to a DS?

[Kaphotics]

Nobody has documented how to enable box storage, so I can't implement it unless someone figures it out first.

edit: see below, kinda cludgy to get working with PKHeX at the moment

[Latias4Ever]

I used the steps provided from @BlackShark, and managed to enable the box storage: 

Here's the result after following the steps and then adding a Pokémon to it.

Spoiler