Cleanliness requirement is a function of feature size. For a process that has 5 µm features (that is roughly 250 times larger than current fabs) its pretty manageable. That is further improved if you use the 'cannister' technique where the "wafer" is in a sealed canister that is opened when inserted into the machine and closes automatically when pulled out.
I am envisioning a handle which ends in stainless steel holding mechanism that has the feature that when you slide it into a 'production' slot the holding mechanism pushes back to reveal the sample's surface. Think window on a floppy disk only better at keeping dust out.
6mm is pretty small (about 1/4" to be precise) in diameter. Call it 25 mm^2 of area, you're looking at, maybe, 10K "device elements" you could lay down (I'm guessing you lose a bunch of space to 3 - 8 "pads")
Your "fab" is a machine that sits on a desk, it has tanks that hold 'consumables' that are used in the process and a tank that fills with waste output. Both the empty consumables tanks and the full waste tank are shipped off to be disposed of properly.
On working side of the fab there are ports that are of the same shape as the end of your sample holder. They positively lock so you push the sample holder into the port until it "clicks" and then the machine does an evacuation cycle, followed by that step of the process.
Building a device would consist of loading your design in, then using the various ports (sometimes more than once) for different steps (add resist/render layer mask) (cure resist/rinse uncured resist off) (etch) (dope-p), (dope-n), (metal), (poly), (package).
The 'package' would always be the same shape. Think a metal can transistor from the 80's. With 8 leads and a pin 1 tab. What leads were connected would be defined by what you had programmed for your device.
You do all the steps (it would probably take anywhere from 1 to 3 days depending on the process steps you used). And the result is this part you made. Plug it into your characterization harness and verify it's function and/or signal parameters. If it fails you toss it and do another one, if it passes you have your bespoke device to use in your project.
I certainly don't see something like that having mass market appeal but I know you could sell them.