The flash said successful and then I installed the apk.
Open it and it says there is no patch and gives link to XDA thread. (screenshot attached.)
Oh well, seems like no harm done. It didn't break anything as far as I can tell.
I'd love to have Pdroid working on this phone.
Just a side note. I extracted the Permissions Manager .apk from a MIUI rom (evo 3d) and it installs and works just fine. (don't use the root manager leave that up to superSU)
Its not as extensive as Pdroid but it does let you lock down all your installed apps.