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I run external cables for all but the battery. I used the bottom bracket drain hole to feed the cable to the battery (the hole was small so had to cut and re-join the cable), there has to be a hole from the bb shell to the seat tube of course.
Cables use the external connector (jc-40?) since neither the drain hole nor the cable guide hole are big enough to take more that 1 cable an I think the holes to the seat and down tubes are too small to take the internal cable connector.
External batteries are still available. Just not as neat.
Had this brilliant/stupid idea on the weekend to convert my 12yr old S-Works Tarmac from 10spd DA to some form of Di2, probably Ultegra.
Obviously it has no Di2 cable options so I'd probably just run it all externally unless someone has got good docs on how to bodge an internal setup?
With Di2 I could run aerobars on it easily without having to worry about shift cables and shit. It's nicer for travel too.
Do they still do external batteries or does everyone just mount the internal ones externally?