I've never heard of this before. Even if a PSP game isn't downloadable directly onto Vita (for some reason!), you should still be able to, say, download it onto your PS3 and copy it over to Vita. The idea that the game would simply not be set to function on a Vita sounds like pure madness to me.
I don't think you'll have much to worry about with Brandish or Trails 2, however -- I think it's pretty likely that we'll be pursuing a PSN release in EU ourselves, as we have with the majority of our past Falcom PSP titles. And considering we're anticipating most people will be playing these games on their Vitas due to the much higher install base, we would be pretty pissed if we were told our games weren't going to be downloadable onto Vita, as that would basically kill any sales potential the games might otherwise have.
So while I can't promise anything, I think it's safe to say that if and when we do contact Sony about listing these titles on EU PSN, we'll be pretty insistent on including them in the Vita store, and will be all WTF SONY if they give us any lip about it.