Hi Andy,
Although I've never made a bike bellhousing I've done a bit of aluminum casting. I don't know how much experience you have had with this sort of thing but it isn't rocket science, it is technology literally thousands of years old! Only difference is that today we don't have to use bits of leather and beeswax to finish our wooden patterns.
You'll need a "shrink rule" to do all your measurements when laying out the pattern after you get your design set, this will make the pattern a little bigger to take into account the shrinkage of the alum. when it cools. I think aluminum is roughly 1/8th inch per foot, it's been a while so I'd ask the foundry guys don't take my word. These are available from pattern suppliers. One here in the US is Freedman, but I'm sure that they are more in the UK. A wood lathe or metal lathe is handy to turn the wooden pattern pieces, this goes like any other woodworking project except that you can fill any imperfections with auto body filler and it doesn't have to look pretty! Be sure to have enough draft on the pattern sides so it will pull out of the sand easily, and don't forget to fillet the inside angles so the sand releases. Here in the US there are few foundries that will let you make the pattern, sounds like you found a good one that will work with you. I'd pick their brains and get as much advice as you can as patterns, especially of bigger intricate pieces can be tricky. I'd go to the foundry and look at some other peoples patterns and see how they are made. I'm not a woodworker so I've made pattern pieces using a milling machine, lathe, and drill press with good results. You can make a mock-up out of wood to bolt up to your engine and trans to see it all fits, do your measurements and then lay out the pattern using the shrink rule. This is the "old school" way before CAD/CAM and all that fancy stuff came into being.
There is lots of info on the web on home casting and patternmaking, one website that comes to mind is metalweb.org I think it is called.
Another word of advice is that I would have a couple of pieces made, just in case you goof up in machining. There is usually a setup charge for the job, and the total job price may not be much more for 2 or 3 pieces than 1. for And, if you turn up a perfect piece from your casting, I'm sure someone will buy your spare casting and possibly that will pay for your piece, too! Also, make sure the alloy type they use machines well, I've made castings of aluminum that were so gummy they were impossible to machine. I've found that the alloy used for pistons, heads, and other automotive uses was the best to machine. I am sure your foundry will steer you to the right mix if they know what your plans are. You don't need the bellhousing any thicker than what was on the bike originally, except that thicker will give you more material to work with and to a point will make it possibly easier to cast, but the tradeoff is making the "bell" part too thick to fit in the mounting bolts! After you get it all set give it a few coats of varnish sanding in between with fine paper to get it nice and smooth. Again, check with the foundry guys on what to use. Talk to their patternmaker if you can, these guys are true artists and are few and far between in these days (I used to work with a guy 20 years ago who was a machinist and patternmaker for Indian Motorcycle and many days I wish he were still alive so I could get his advice when I'm in a fix! He was a dear friend and a great mentor.) Learn all you can from them and pass it on!
If I remember what a BMW tranny and bellhousing is like, perhaps you could have less work casting (or machining from a chunk of plate) an adapter plate to mate the BMW bell to your engine, or just make up an adapter ring. I've done this back in my misspent youth building hot rods when I'd adapt a big Chevy V-8 to a tiny 1930's Ford transmission. Then I'd floor the gas pedal, pop the clutch, and watch the innards of the tranny blow out of it's case all over the road, then go back to the garage and do it all over again.

There are lots of Dieselized BMWs and Dneprs out there to get some good ideas from.
Good luck, and keep us all posted on your progress!
Brad