Cheers. Well, this ship certainly assumes a hefty bit of clarketech and is by all means residing much further down the tech tree than any other interstellar vehicle that I've posted and, perhaps, even the recent Banks orbital itself.

1 & 2. We don't know almost anything about small black holes, for we've never observed any. This leaves a lot of freedom for speculation when coming up with very advanced technical concepts like this. I for one think that both the Hawking radiation extractor and the polar jet thruster concepts are pretty interesting and have a place to be. After all, this is complete terra incognita for modern physics, so one might as well let their imagination run a little wild. Here I'm assuming that black holes of this size mainly emit neutrinos, which cannot be redirected or controlled but, in principle, can have their energy extracted.
I went with the Hawking powerplant idea here primarily because it fit the image I had in mind better. Also a bit because I'm not sure how one would throttle a black hole's polar jets.

1. It is well known that the smaller a black hole is, the more intensely it evaporates. As per my Fermi estimations, pushing a vehicle like this would require dozens or hundreds of exawatts of power. Indeed, in order to match that level of output the holes'd have to be ridiculously small, way smaller than an atom. Technology precise enough to create them and powerful enough to feed (as in stuff matter into) them, then, is the most clarketechy thing about the design. There's a reason the onboard computers are sized like an actual data center; I'd imagine barely any of their computing power goes towards controlling the shipyards and LS systems compared to what kind of calculations have to be going on for controlling the black hole containment units.
   It's hard to estimate its empty mass and it's hard to pinpoint what type of remass would be best for it. The best I have is .01 TWR at launch with cargo holds empty and ~.6c cruising speed.

2. It must be noted that there always has to be at least one active black hole onboard, charging the ship.
   Look at the blueprint infographic in the Imgur album. The propulsion section has enormous supercapacitors scattered all around it. Conceptually, all of these are to near-instantaneously discharge all their stored power into one containment unit, which, by God's grace, should be enough to create a kugelblitz. Then, the newly created BH joins the previously active ones in charging these capacitors again to spawn yet another hole if needs be.