Thanks for the thoughts and comments everyone. As it seems to be of biggest interest, I'll start with the electronic focusers.
At the moment I have a Precision Digital Focuser (PDF) made by Finger Lakes Instruments (FLI). I have been using this on a 677mm F/5.21 6 element lens which has a corrected imaging circle of 55mm (will take a 36x36mm sensor) but has a lose focus of something like 30m

I have a FLI Atlas arriving in a couple of weeks with a new telescope which is a 600mm F/3 catatropic. At this speed it has a critical focus zone of something like 3-5 microns so having smaller steps will really help.
Both focusers can be found at the link below.
http://www.flicamera.com/focusers/index.html
For connecting everything together I use Precise Parts, specialist company for making astro adapters (blackened and flocked). I can get them to fabricate lens adapters to the digital focuser.
http://www.preciseparts.com
It sounds like the infinite objectives are better performers than the finite ones, also sounds like this is mostly due to better infinite ones being made than the finite. Supply and demand perhaps?
In the telescope world, if you want an excellent 5" imaging telescope you have to get a refractor (lens). We also talk in aperture size as opposed to focal length so 5" (130mm). I have a 130mm F/5 that works at its best at F/5.21 (677mm).
In regards to the infinite objectives, you mention 200mm lens tube, I assume that this purely refers to using a lens with 200mm focal length?
Is the optical quality of the lens as important as the quality of the microscope objective?
The reason I ask is that I can get a second hand Nikkor AI-S 200mm F/4 for ~$250 which was built as a cheaper and lighter 180mm F/2.8 (this is what it seems to be recognised as). Alternatively I can spend a fair bit more and get a Nikkor 200mm F/4 Macro which is sharper and has better lateral colour correction but is also 8x the cost. Although arguably it can also be used around the garden as a long working distance macro lens too so it isn't all bad from that perspective.
As for my cameras. I bought my Nikon D7200 a couple of months back, it hasn't been modified at all though. Still have a Nikon D700 which I am still deciding whether or not I want to keep. Fantastic camera but with its anti-aliasing filter is quite soft. On the plus side with its 8.445 micron pixels, bayer matrix and anti-aliasing filter it requires a lens to be more or less damaged before it shows anything as being not "sharp" haha
The other camera I have is a QHY163M.
http://www.qhyccd.com/QHY163.html
To take colour images I screw it into a motorised colour filter wheel.
http://www.qhyccd.com/QHYCFW2-M.html
And have filled it with 7 Astrodon 36mm unmounted LRGB Ha OIII SII filters.
http://astrodon.com/store/p4/Astrodon_L ... lters.html
If you check out the spectral lines you'll notice there are gaps, these are mostly for light pollution (sodium/magnesium) emission lines. They're designed to the correctly colour calibrated for astrophotography so white balancing would be required for daylight photography.
As for what I actually want to photograph? No idea for the most part! Definitely do bugs (dead ones) and even more obscure things like carpet fibres, mould, fungi and wood. Why not through some cooking pans in the mix too
