Hi Phil
I saw your post and I thought I'd have a look at my alternator to see the difference. I've got an 84 LC model and I believe everything on it is original, including (I think) the original fit Valeo alternator.
My setup seems to be different to yours and I'm not sure why. I think my alternator sits lower than yours and below the airbox, so from my perspective your alernator should be lower, not higher. Also, your alternator bracketry (is that a word?) looks different to mine. I don't have this bracket on my car - see picture below:
Here's some pics of mine:
As you can see, there's just one engine mounting/bracket for the alternator. Not sure why - maybe the later HC engine had a different arrangement? Main thing to notice is that the alternator sits just below the airbox. Maybe you need a shorter alternator belt?
I'll also add my three haporth on the subject of the carb mounting bolts and studs. The nuts on mine are held using plain washers, nyloc nuts and loctite on the threads. It's probably an overkill using loctite as well as locking nuts, but the consequences of a nut coming loose are just too dramatic to chance it. SJ Sportscars use this approach when they do a rebuild so I do likewise. And John's right, it's a fiddly job and a flexi shaft for the sockets helps.
Cheers