Hmmm...
Well, stasis fields and whatnot are out. I want this to be low tech space travel. I need to have stasis for the basic premise to work, but I want it to have disadvantages. Plus I need my guy to form friendships on the trip out there.
Interference from nearby stars and stellar phenomena and whatnot are out, since the ship's only going to Epsilon Indi - 11.3 light years away. If Alpha centauri is next door, then Indi is, well, across the road. There's nothing in between us and it.
Sabotage is a possibility. I'm trying to "foreshadow" later events in the story as much as possible in the first part, and sabotage would work well for that, if I could do it properly. It'd be strange to have the communications system be the only thing damaged, but it could be worked in.
Micrometeorite collision is also doable. The ship will have to pass through the Oort cloud after all, so there's a nice convenient source in roughly the right spot (about 10% of the journey, five or so years in, too late to turn back if nothing critical was damaged).
Hmm, well, I'll pick one. Cheers guys.