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Let's not bring multidimensional storage devices into this, or else I will put a bag of holding into a portable hole.

Of course, I've always thought those rules were horribly stupid anyways...

Anyways, that has nothing to do with the discussion at hand. The point is, Aside from certain horribly expensive and not even publicly released flash drives, DVDs have far more data bank per size than anything else on the market now that comes in a portable medium.
It only makes sense that DVD's or another form of easily transferable medium, be used to store TM data. Obvious they will not be the TM device itself (DVDs need a reader to be of any use), so there is the possibility of them being the box, but I wouldn't really trust the CCG as our catch all end all, canonical source. Naturally, our source is the source, the game.

Dragon's Addendum: Additionally, you're all treating the DVD like it's capable of being used only for its commercial purpose only, which is not the case. You can store raw data of all types on a DVD...

HOWEVER... And this is a silly, scary thought... Those won't be DVD's, they'll be GCN sized discs, placed into a Gamecube sized machine...

Personally though, I think Discs/ Flash drives are the way to go. Open sided boxes without swappable media, unlimited physical storage space or no, strike me as stupid. An example: Your computer, laptop or desktop. Think if it did only a few things, with no way to change that at all, and the only way to do something different was to buy a completely new machine with something different on it.
Now bring in Removable Media. You can do a lot more with removable and rewritable media.
But it's late for me as I have had way too little sleep recently.