re the banjo bolts---position will not affect flow through them--they're channeled all the way around.
if the caliper pistons are frozen fully retracted, it "may" cause the issue you're having. you can try blowing them out to check (not a bad idea with an older system anyway).
I haven't played with these buggy brakes at all, so i'm not sure exactly how the various fluid passages are oriented.
These are tiny tiny tiny systems compared to automotive brakes, try both of the following:
connect all your lines etc. then open all your bleeders and put the master's reservoir as high as you can. fill it and let it sit with the caliper bleeders open. if you don't get any fluid dripping out after an hour, try doing the same basic thing, but see if you can hook and seal your vacuum pump to the master reservoir and see if you can push the fluid through the system.
if neither of these produces results, remove the brake lines from the calipers and repeat either of the above. if you get fluid through, the issue is in the calipers. if you don't, its the lines or master.
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